Citrus Sinensis ID: 022525

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-----
Protein Sequence
MKNSFRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPESNSTRFS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccEEEEEEcccccccHHHHHHHHHHHHHHcccccEEEEcccccccccccccccccccccccccEEEEccccccEEEEEEccccccccEEEccHHHHHHHHHHHHccccccccEEEEEcccccHHHHHHHHccccccEEEEEcccHHHHHHHHHHHHHHHHcccccEEEEEEccccccccccccccccccccHHHHHHHHHccccEEcccccHHHHcccccccEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEEccEEEcccccccccccccccEEEEEEcEcccccHHHHHHHHHHHHHHHcccEEEEEEcccccccccHHcccccccccccccEEEEHHHcccEEEEEEEEEcccccEEEccHHHHHHHHHHHHHcccccccEEEEEcccccccHHEEHHccccccEEEEEEcHHHHHHHHHHHHHHHHHHccccEEEEEEccEEEEccccccccHHccccHHHHHHHHccccEEccccccEEEEccccccccEEEEccccHHHHHHHHHHHHHHHHHHHHHccccccccEEEEEc
Coil and Loop (DISEMBL)
MKNSFRIFTRLGGVRYyaafgskdlkidgVKDVIAVasgkggvgksTTAVNLAVALASKCQLKVGlldadvygpsvpmmmkidqkpevtkdmkmvpienygvkcmsmgflvpssspvvwrgpmVMSALRKMSrevdwgnldilvidmppgtgdaqlTTTQTLQLSgalivstpqdvALIDARKGITMFSKVQVPIlglvenmscficphcsepsfifgkggthrTAAEMGLKVIGeipiemdirkgsddgvpvvisapdstvsraYGEVAVNVVNRLQELAkeqehpesnstrfs
Flexible Loop (DISEMBL)
MKNSFRIFTRLGGVRYYAAfgskdlkidgVKDVIAVasgkggvgksTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISapdstvsrayGEVAVNVVNRLQElakeqehpesnstrfs
Low Complexity Region (SEG)
MKNSFRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAqltttqtlqlSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPESNSTRFS
Disordered region (IsUnstruct)
****FRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID***EVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRL******************
Disordered Region (DISOPRED)
*******************************DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKI***********MVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVN******************F*
Disordered Region (DISEMBL)
MKNSFRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELA**************
Disordered Region (DISPRO)
**NSFRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPESNSTRFS
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKNSFRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPESNSTRFS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	295	2.2.26 [Sep-21-2011]
Q54F15	323	Iron-sulfur protein NUBPL	yes	no	0.874	0.798	0.536	3e-82
Q8TB37	319	Iron-sulfur protein NUBPL	yes	no	0.864	0.799	0.589	3e-81
Q9CWD8	319	Iron-sulfur protein NUBPL	yes	no	0.867	0.802	0.575	2e-78
P45135	370	Protein mrp homolog OS=Ha	yes	no	0.847	0.675	0.480	2e-67
O66946	364	Protein mrp homolog OS=Aq	yes	no	0.827	0.670	0.522	6e-66
P0AF08	369	Protein mrp OS=Escherichi	N/A	no	0.847	0.677	0.503	9e-66
P0AF09	369	Protein mrp OS=Escherichi	yes	no	0.847	0.677	0.503	9e-66
Q6CE48	312	Iron-sulfur protein IND1	yes	no	0.840	0.794	0.478	7e-65
O24999	368	Protein mrp homolog OS=He	no	no	0.861	0.690	0.455	3e-64
P72190	287	Uncharacterized ATP-bindi	N/A	no	0.816	0.839	0.508	4e-64

>sp|Q54F15|NUBPL_DICDI Iron-sulfur protein NUBPL OS=Dictyostelium discoideum GN=nubpl PE=3 SV=1

 Score =  305 bits (780), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 140/261 (53%), Positives = 195/261 (74%), Gaps = 3/261 (1%)

Query: 27  IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMM--KIDQ 84
           I+G+K++IAV+S KGGVGKST AVN+A+ L+S   L VGLLD DV+GPS+P+MM  K  +
Sbjct: 53  IEGIKNIIAVSSAKGGVGKSTCAVNIALGLSSH-NLSVGLLDVDVFGPSIPLMMDLKNHE 111

Query: 85  KPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILV 144
           KP   +  +M+P++NYG+KCMSMGFLV    P++WRGPMV SAL K+ R+ DWG+LD+LV
Sbjct: 112 KPFTNELNQMIPLQNYGIKCMSMGFLVNEDDPIIWRGPMVGSALEKLLRQTDWGHLDVLV 171

Query: 145 IDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC 204
            D+PPGTGDA LT  Q + L+GA+IVSTPQDVAL D  +G+ MF KV+VPILGLVENMS 
Sbjct: 172 CDLPPGTGDAILTMCQRVPLTGAVIVSTPQDVALADVVRGVNMFKKVEVPILGLVENMSY 231

Query: 205 FICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSR 264
           F CPHC+E + IFG  G   TA +MG+  +G++PI + IR+ SD G P+ ++ PDS  ++
Sbjct: 232 FNCPHCNESTHIFGNEGAKNTAKKMGINFLGDVPIHLQIRETSDSGKPITVTQPDSPQAK 291

Query: 265 AYGEVAVNVVNRLQELAKEQE 285
            Y +++  ++ +L+ +  ++ 
Sbjct: 292 NYKDISKEIIKQLEIINNDEN 312

Required for the assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). May deliver of one or more Fe-S clusters to complex I subunits.
Dictyostelium discoideum (taxid: 44689)

>sp|Q8TB37|NUBPL_HUMAN Iron-sulfur protein NUBPL OS=Homo sapiens GN=NUBPL PE=1 SV=3

 Score =  301 bits (771), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 151/256 (58%), Positives = 191/256 (74%), Gaps = 1/256 (0%)

Query: 23  KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
           K   I+GVK VI VASGKGGVGKSTTAVNLA+ALA+    K +GLLD DVYGPSVP MM 
Sbjct: 59  KQKPIEGVKQVIVVASGKGGVGKSTTAVNLALALAANDSSKAIGLLDVDVYGPSVPKMMN 118

Query: 82  IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
           +   PE+++   M P+ NYG+ CMSMGFLV  S PVVWRG MVMSA+ K+ R+VDWG LD
Sbjct: 119 LKGNPELSQSNLMRPLLNYGIACMSMGFLVEESEPVVWRGLMVMSAIEKLLRQVDWGQLD 178

Query: 142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
            LV+DMPPGTGD QL+ +Q + ++GA+IVSTPQD+AL+DA KG  MF +V VP+LGLV+N
Sbjct: 179 YLVVDMPPGTGDVQLSVSQNIPITGAVIVSTPQDIALMDAHKGAEMFRRVHVPVLGLVQN 238

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
           MS F CP C   + IFG  G  + A  +GL+V+G+IP+ ++IR+ SD G P+V S P+S 
Sbjct: 239 MSVFQCPKCKHKTHIFGADGARKLAQTLGLEVLGDIPLHLNIREASDTGQPIVFSQPESD 298

Query: 262 VSRAYGEVAVNVVNRL 277
            ++AY  +AV VV RL
Sbjct: 299 EAKAYLRIAVEVVRRL 314

Required for the assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). May deliver of one or more Fe-S clusters to complex I subunits.

Homo sapiens (taxid: 9606)

>sp|Q9CWD8|NUBPL_MOUSE Iron-sulfur protein NUBPL OS=Mus musculus GN=Nubpl PE=2 SV=2

 Score =  292 bits (747), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 148/257 (57%), Positives = 189/257 (73%), Gaps = 1/257 (0%)

Query: 23  KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
           K   I+GV++VI VASGKGGVGKSTTAVNLA+ALA+    K VGLLD DVYGPS+P MM 
Sbjct: 59  KQKPIEGVREVIVVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMN 118

Query: 82  IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
           +   PE++ +  M P+ NYG+ CMSMGFLV  ++P+VWRG MVMSA+ K+ R+VDWG LD
Sbjct: 119 LRGNPELSPNNLMRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLD 178

Query: 142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
            LV+DMPPGTGD QL+ +Q + +SGA+IVSTPQD+AL+DA KG  MF KV VP+LGLV+N
Sbjct: 179 YLVVDMPPGTGDVQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVNVPVLGLVQN 238

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
           MS F CP C   + IFG  G  + A  + L V+G++P+ + IR+ SD G PVV S P S 
Sbjct: 239 MSVFQCPKCKHKTHIFGADGARKLAQTLDLDVLGDVPLHLSIREASDMGQPVVFSQPGSD 298

Query: 262 VSRAYGEVAVNVVNRLQ 278
            ++AY  +A  VV RL+
Sbjct: 299 EAKAYLHIASEVVRRLK 315

Required for the assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). May deliver of one or more Fe-S clusters to complex I subunits.

Mus musculus (taxid: 10090)

>sp|P45135|MRP_HAEIN Protein mrp homolog OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=mrp PE=3 SV=2

 Score =  255 bits (652), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 121/252 (48%), Positives = 177/252 (70%), Gaps = 2/252 (0%)

Query: 27  IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMM-KIDQK 85
           + GVK++IAV+SGKGGVGKS+ +VNLA+AL ++   +VG+LDAD+YGPS+P M+   DQ+
Sbjct: 103 VKGVKNIIAVSSGKGGVGKSSVSVNLALALQAQGA-RVGILDADIYGPSIPHMLGAADQR 161

Query: 86  PEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVI 145
           P    +  + PI+ +G+   S+GFL+   S  +WRGPM  SAL ++  E  W +LD LVI
Sbjct: 162 PTSPDNQHITPIKAHGLSANSIGFLMNEDSATIWRGPMASSALSQLLNETLWDSLDYLVI 221

Query: 146 DMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF 205
           DMPPGTGD QLT +Q + ++GA++V+TPQD+AL+DA KGI+MF +V VP+LG+VENMS  
Sbjct: 222 DMPPGTGDIQLTLSQQIPVTGAVVVTTPQDIALLDAVKGISMFERVSVPVLGIVENMSMH 281

Query: 206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRA 265
           IC  C     IFG GG  + A +  +KV+ ++P+ + IR+  D G P V+  P++ +S+A
Sbjct: 282 ICSECGHHEAIFGTGGAEKMAEKYNVKVLAQLPLHIRIREDLDAGNPTVVRVPENEISQA 341

Query: 266 YGEVAVNVVNRL 277
           + ++A  V   L
Sbjct: 342 FLQLAEKVSTEL 353

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

>sp|O66946|MRP_AQUAE Protein mrp homolog OS=Aquifex aeolicus (strain VF5) GN=mrp PE=3 SV=1

 Score =  251 bits (640), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 129/247 (52%), Positives = 182/247 (73%), Gaps = 3/247 (1%)

Query: 26  KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID-Q 84
           K+ GVK +IAV SGKGGVGKST A NLAVAL S+   KVGLLDADVYGPSVP +  +  +
Sbjct: 107 KVPGVKHIIAVGSGKGGVGKSTVAANLAVAL-SQLGYKVGLLDADVYGPSVPTLFGLKGE 165

Query: 85  KPEVTKDMKMVPIENYGVKCMSMGFLVPSS-SPVVWRGPMVMSALRKMSREVDWGNLDIL 143
           +  V +  +++P+E YG+K +S+GF++PS  +P++WRGPM+M AL +      WGNLD L
Sbjct: 166 RVTVDQFQRIIPVEKYGLKILSIGFMLPSEDTPIIWRGPMLMKALTEFLFSTKWGNLDFL 225

Query: 144 VIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMS 203
           V+D+PPGTGD Q+T  Q ++L+GA++V+TPQDVAL D +K ++MF +V +P+LG++ENM+
Sbjct: 226 VMDLPPGTGDVQITLAQNVELTGAVVVTTPQDVALADVKKAVSMFREVNIPVLGVIENMA 285

Query: 204 CFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVS 263
            FICP   +  +IFGKG     A   GLK++G IPI+ ++ + SD G P+VIS PDS V+
Sbjct: 286 YFICPSDKQKYYIFGKGKVAEFANAYGLKILGSIPIDPEVAEKSDKGEPIVISHPDSEVA 345

Query: 264 RAYGEVA 270
           +A+  +A
Sbjct: 346 KAFLSIA 352

Aquifex aeolicus (strain VF5) (taxid: 224324)

>sp|P0AF08|MRP_ECOLI Protein mrp OS=Escherichia coli (strain K12) GN=mrp PE=3 SV=1

 Score =  250 bits (638), Expect = 9e-66,   Method: Compositional matrix adjust.
 Identities = 127/252 (50%), Positives = 180/252 (71%), Gaps = 2/252 (0%)

Query: 27  IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID-QK 85
           I+GVK++IAV+SGKGGVGKS+TAVNLA+ALA++   KVG+LDAD+YGPS+P M+  + Q+
Sbjct: 103 INGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGA-KVGILDADIYGPSIPTMLGAENQR 161

Query: 86  PEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVI 145
           P       M PI ++G+   S+G+LV   + +VWRGPM   AL +M +E  W +LD LV+
Sbjct: 162 PTSPDGTHMAPIMSHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVL 221

Query: 146 DMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF 205
           DMPPGTGD QLT  Q + ++GA++V+TPQD+ALIDA+KGI MF KV+VP+LG+VENMS  
Sbjct: 222 DMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSVH 281

Query: 206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRA 265
           IC +C     IFG GG  + A +   +++G++P+ + +R+  D G P VIS P+S  +  
Sbjct: 282 ICSNCGHHEPIFGTGGAEKLAEKYHTQLLGQMPLHISLREDLDKGTPTVISRPESEFTAI 341

Query: 266 YGEVAVNVVNRL 277
           Y ++A  V  +L
Sbjct: 342 YRQLADRVAAQL 353

Escherichia coli (strain K12) (taxid: 83333)

>sp|P0AF09|MRP_ECOL6 Protein mrp OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=mrp PE=3 SV=1

 Score =  250 bits (638), Expect = 9e-66,   Method: Compositional matrix adjust.
 Identities = 127/252 (50%), Positives = 180/252 (71%), Gaps = 2/252 (0%)

Query: 27  IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID-QK 85
           I+GVK++IAV+SGKGGVGKS+TAVNLA+ALA++   KVG+LDAD+YGPS+P M+  + Q+
Sbjct: 103 INGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGA-KVGILDADIYGPSIPTMLGAENQR 161

Query: 86  PEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVI 145
           P       M PI ++G+   S+G+LV   + +VWRGPM   AL +M +E  W +LD LV+
Sbjct: 162 PTSPDGTHMAPIMSHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVL 221

Query: 146 DMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF 205
           DMPPGTGD QLT  Q + ++GA++V+TPQD+ALIDA+KGI MF KV+VP+LG+VENMS  
Sbjct: 222 DMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSVH 281

Query: 206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRA 265
           IC +C     IFG GG  + A +   +++G++P+ + +R+  D G P VIS P+S  +  
Sbjct: 282 ICSNCGHHEPIFGTGGAEKLAEKYHTQLLGQMPLHISLREDLDKGTPTVISRPESEFTAI 341

Query: 266 YGEVAVNVVNRL 277
           Y ++A  V  +L
Sbjct: 342 YRQLADRVAAQL 353

Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) (taxid: 199310)

>sp|Q6CE48|IND1_YARLI Iron-sulfur protein IND1 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=IND1 PE=1 SV=1

 Score =  247 bits (631), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 120/251 (47%), Positives = 172/251 (68%), Gaps = 3/251 (1%)

Query: 27  IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP 86
           I GVK  I V+S KGGVGKST +VN A++LA +  L+VGLLD D++GPS+P M  +  +P
Sbjct: 63  IAGVKKTIVVSSAKGGVGKSTVSVNTALSLAKRG-LRVGLLDVDIFGPSIPTMFGLSGEP 121

Query: 87  EVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVID 146
            +T + K++P+  +G++ MSMGFLV  +  V WRG +V  AL ++ ++VDWG LD+LV+D
Sbjct: 122 RMTHEGKLIPMSKFGIQVMSMGFLVDPNKAVAWRGLLVQKALEQLLQDVDWGTLDVLVMD 181

Query: 147 MPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI 206
           +PPGTGD QLT  QT+++ GA+IVSTPQDVAL+D  +G+ +F K    +LGLV+NMS F+
Sbjct: 182 LPPGTGDVQLTIAQTVKIDGAIIVSTPQDVALVDVVRGLDLFEKTYTKVLGLVQNMSVFV 241

Query: 207 CPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAY 266
           CP+C+  + IFG  G    A   GL V+G +P++  I   SD GVPV +S      ++ Y
Sbjct: 242 CPNCNHETHIFGVDGAVSKAKSRGLGVLGNVPLDPQICSQSDKGVPVAVSG--GVQAKYY 299

Query: 267 GEVAVNVVNRL 277
            ++A  V  +L
Sbjct: 300 DKIAEGVAEQL 310

Required for the effective assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). Probably facilitates the assembly of Fe-S cofactors and subunits of complex I.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

>sp|O24999|MRP_HELPY Protein mrp homolog OS=Helicobacter pylori (strain ATCC 700392 / 26695) GN=mrp PE=3 SV=2

 Score =  245 bits (625), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 118/259 (45%), Positives = 176/259 (67%), Gaps = 5/259 (1%)

Query: 29  GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV 88
            +K V+ ++SGKGGVGKSTT+VNL++ALA+  Q KVGLLDADVYGP++P MM + Q  +V
Sbjct: 95  NIKHVVMISSGKGGVGKSTTSVNLSIALANLNQ-KVGLLDADVYGPNIPRMMGL-QSADV 152

Query: 89  TKD---MKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVI 145
             D    K++P++ +GV  MSMG L      ++WRGPM+M A+ +M  ++ WG+LD+LV+
Sbjct: 153 IMDPSGKKLIPLKAFGVSVMSMGLLYDEGQSLIWRGPMLMRAIEQMLSDIIWGDLDVLVV 212

Query: 146 DMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF 205
           DMPPGTGDAQLT  Q + LS  + V+TPQ V+L DA++ + MF K+ +PI G+VENM  F
Sbjct: 213 DMPPGTGDAQLTLAQAVPLSAGITVTTPQIVSLDDAKRSLDMFKKLHIPIAGIVENMGSF 272

Query: 206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRA 265
           +C HC + S IFG             +++ ++P+E  +R G D G P+VIS P+S  ++ 
Sbjct: 273 VCEHCKKESEIFGSNSMSELLEAYHTQILAKLPLEPKVRLGGDRGEPIVISHPNSVSAKI 332

Query: 266 YGEVAVNVVNRLQELAKEQ 284
           + ++A ++   L+ + KE+
Sbjct: 333 FEKMAQDLSAFLERVKKEK 351

Helicobacter pylori (strain ATCC 700392 / 26695) (taxid: 85962)

>sp|P72190|YCAB_PSEFR Uncharacterized ATP-binding protein in capB 3'region OS=Pseudomonas fragi PE=3 SV=1

 Score =  244 bits (624), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 124/244 (50%), Positives = 178/244 (72%), Gaps = 3/244 (1%)

Query: 30  VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ--KPE 87
           VK+++AVASGKGGVGKSTTA NLA+ALA +   +VG+LDAD+YGPS  +M  I +  +P+
Sbjct: 38  VKNIVAVASGKGGVGKSTTAANLALALAREGA-RVGILDADIYGPSQGVMFGIAEGTRPK 96

Query: 88  VTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDM 147
           +      VPIE +GV+ MSM FL   ++P+VWRGPMV  AL ++  +  W +LD LVIDM
Sbjct: 97  IRDQKWFVPIEAHGVEVMSMAFLTDDNTPMVWRGPMVSGALLQLVTQTAWNDLDYLVIDM 156

Query: 148 PPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFIC 207
           PPGTGD QLT  Q + ++G++IV+TPQD+AL+DARKG+ MF KV +P+LG+VENM+  IC
Sbjct: 157 PPGTGDIQLTLAQKVPVAGSVIVTTPQDLALLDARKGVEMFRKVNIPVLGVVENMAVHIC 216

Query: 208 PHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYG 267
            +C     +FG+GG  + A + G++V+  +P+ M+IR+ +D+G P  I+ P+S ++  Y 
Sbjct: 217 SNCGHAEHLFGEGGGEKLATQYGVEVLASLPLAMEIREQADNGKPTAIADPNSPIALIYQ 276

Query: 268 EVAV 271
           E+AV
Sbjct: 277 ELAV 280

Pseudomonas fragi (taxid: 296)

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	295
224085613	293	predicted protein [Populus trichocarpa]	0.983	0.989	0.746	1e-124
255559965	293	Protein mrp, putative [Ricinus communis]	0.983	0.989	0.736	1e-123
224062188	260	predicted protein [Populus trichocarpa]	0.867	0.984	0.800	1e-118
356545830	277	PREDICTED: iron-sulfur protein NUBPL-lik	0.922	0.981	0.713	1e-114
297804198	312	hypothetical protein ARALYDRAFT_492911 [	0.898	0.849	0.720	1e-114
15235067	313	ATP-binding protein involved in chromoso	0.898	0.846	0.720	1e-113
356536802	277	PREDICTED: iron-sulfur protein NUBPL-lik	0.901	0.960	0.722	1e-113
21537349	313	ATP binding protein-like [Arabidopsis th	0.877	0.827	0.737	1e-113
388502488	279	unknown [Lotus japonicus]	0.922	0.974	0.702	1e-111
147777913	341	hypothetical protein VITISV_031406 [Viti	0.918	0.794	0.693	1e-111

>gi|224085613|ref|XP_002307635.1| predicted protein [Populus trichocarpa] gi|222857084|gb|EEE94631.1| predicted protein [Populus trichocarpa]

 Score =  450 bits (1158), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/292 (74%), Positives = 247/292 (84%), Gaps = 2/292 (0%)

Query: 1   MKNSFRIFTRLGGVRYYAA-FGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASK 59
           MK      +RLG +R Y+  F    L+++GVKDVIAVASGKGGVGKSTTAVNLAVALA K
Sbjct: 1   MKGFLGPLSRLGSIRSYSGTFKRSQLRLEGVKDVIAVASGKGGVGKSTTAVNLAVALAIK 60

Query: 60  CQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVW 119
           CQLKVGLLDADVYGPSVPMMMKID+KP++T+D KM+PIENYGVKCMSMGFLV   +P+VW
Sbjct: 61  CQLKVGLLDADVYGPSVPMMMKIDRKPDITEDKKMIPIENYGVKCMSMGFLVEKDAPIVW 120

Query: 120 RGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI 179
           RGPMVMSAL KM+R VDWGNLDILV+DMPPGTGDAQLT TQ LQLSGALIVSTPQD+AL+
Sbjct: 121 RGPMVMSALVKMTRGVDWGNLDILVVDMPPGTGDAQLTMTQNLQLSGALIVSTPQDIALL 180

Query: 180 DARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPI 239
           DAR+G  MFSKV VPILG VENMS F CPHC EPSFIFGKGG    AA MG   +GEIP+
Sbjct: 181 DARRGANMFSKVGVPILGFVENMSFFKCPHCGEPSFIFGKGGARNAAASMGHNFLGEIPL 240

Query: 240 EMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQE-HPESN 290
           E+D+RKGSD+G+PVVISAPDS +S+AYG+ A NVVN+L+ELAKE   HPE N
Sbjct: 241 EVDVRKGSDEGIPVVISAPDSAISKAYGDTAQNVVNKLEELAKEPSLHPEIN 292

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559965|ref|XP_002521001.1| Protein mrp, putative [Ricinus communis] gi|223539838|gb|EEF41418.1| Protein mrp, putative [Ricinus communis]

 Score =  447 bits (1149), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 215/292 (73%), Positives = 245/292 (83%), Gaps = 2/292 (0%)

Query: 1   MKNSFRIFTRLGGVRYYA-AFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASK 59
           MK   R   RLGG R YA +F    L+++GVKDVIAVASGKGGVGKSTTAVNLAVALA+K
Sbjct: 1   MKGFLRPLGRLGGYRCYATSFSRSKLRLEGVKDVIAVASGKGGVGKSTTAVNLAVALATK 60

Query: 60  CQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVW 119
           CQLKVGLLDADVYGPS+P MM+ID+KP+VT D KM+PIENYGVKCMS+GFLV   +P+VW
Sbjct: 61  CQLKVGLLDADVYGPSIPTMMRIDRKPDVTADTKMIPIENYGVKCMSIGFLVEKDAPIVW 120

Query: 120 RGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI 179
           RGPMVMSAL KM R VDWGNLDILV+DMPPGTGDAQLT +Q LQLSGALIVSTPQDVALI
Sbjct: 121 RGPMVMSALEKMLRGVDWGNLDILVVDMPPGTGDAQLTVSQNLQLSGALIVSTPQDVALI 180

Query: 180 DARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPI 239
           DAR+G+ MFSKVQVPILG +ENMSCF CPHC EPS+IFG+GGT +TAA MG   IGEIP+
Sbjct: 181 DARRGVKMFSKVQVPILGFIENMSCFKCPHCGEPSYIFGEGGTRKTAASMGYNFIGEIPL 240

Query: 240 EMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQE-HPESN 290
           E++IRK SD+G+P+ IS PDS VS+AY   A NVV RL+EL KE+   PE N
Sbjct: 241 EVEIRKSSDEGIPITISLPDSVVSKAYSGAAENVVKRLEELTKEKTFQPEIN 292

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224062188|ref|XP_002300792.1| predicted protein [Populus trichocarpa] gi|222842518|gb|EEE80065.1| predicted protein [Populus trichocarpa]

 Score =  430 bits (1106), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 205/256 (80%), Positives = 230/256 (89%)

Query: 25  LKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ 84
           L+++GVKDVIAVASGKGGVGKSTTAVNLAVALA  CQLKVGLLDADVYGPSVPMMMKID+
Sbjct: 5   LRLEGVKDVIAVASGKGGVGKSTTAVNLAVALAKNCQLKVGLLDADVYGPSVPMMMKIDR 64

Query: 85  KPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILV 144
           KP++T+D KM+PIENYGVKCMSMGFLV   +P+VWRGPMVMSAL KM+R VDWGNLDILV
Sbjct: 65  KPDITEDKKMIPIENYGVKCMSMGFLVEKDAPIVWRGPMVMSALAKMTRGVDWGNLDILV 124

Query: 145 IDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC 204
           +DMPPGTGDAQLT TQ LQLSGALIVSTPQD+AL+DAR+G  MFSKV VPILG VENMS 
Sbjct: 125 VDMPPGTGDAQLTMTQNLQLSGALIVSTPQDIALMDARRGANMFSKVDVPILGFVENMSF 184

Query: 205 FICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSR 264
           F CPHC EPSFIFGK GT   AA MG K+IGEIP+E+DIRKGSD+GVPVVISAPDS +S+
Sbjct: 185 FKCPHCGEPSFIFGKEGTRNAAASMGYKLIGEIPLEVDIRKGSDEGVPVVISAPDSVISK 244

Query: 265 AYGEVAVNVVNRLQEL 280
           AYG+ A NVV++L+EL
Sbjct: 245 AYGDTAQNVVSKLEEL 260

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356545830|ref|XP_003541337.1| PREDICTED: iron-sulfur protein NUBPL-like [Glycine max]

 Score =  419 bits (1076), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 199/279 (71%), Positives = 235/279 (84%), Gaps = 7/279 (2%)

Query: 10  RLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA 69
           RLG +R YA    K L+IDGVKD IAVASGKGGVGKSTTAVNLAVALA KCQLKVGLLDA
Sbjct: 3   RLGSIRSYA----KHLRIDGVKDTIAVASGKGGVGKSTTAVNLAVALARKCQLKVGLLDA 58

Query: 70  DVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALR 129
           DVYGPS+P MM I+ KPEVT D KM+PIENYG+KCMS+G LV   +P+VWRGPMV +AL 
Sbjct: 59  DVYGPSIPTMMNINTKPEVTHDKKMIPIENYGIKCMSIGLLVEKDAPIVWRGPMVSNALE 118

Query: 130 KMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFS 189
           KM+R VDWGNLDILV+DMPPGTGD Q+  +Q LQLSGALIVSTPQDVAL+DAR+G+ MF+
Sbjct: 119 KMTRGVDWGNLDILVMDMPPGTGDVQIAMSQNLQLSGALIVSTPQDVALMDARRGVKMFN 178

Query: 190 KVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDD 249
           KV VPILG+VENMSCF CPHC EPS+IFGKGGT RTA+EMGL+++G+IP+E++IR+  D 
Sbjct: 179 KVDVPILGIVENMSCFKCPHCGEPSYIFGKGGTQRTASEMGLELLGKIPLEVEIREACDQ 238

Query: 250 GVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPE 288
           G P+V++APDS VSRAYGEVA  +  +L+E   +Q  PE
Sbjct: 239 GHPIVLAAPDSVVSRAYGEVAEKLAQKLKE---QQFQPE 274

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297804198|ref|XP_002869983.1| hypothetical protein ARALYDRAFT_492911 [Arabidopsis lyrata subsp. lyrata] gi|297315819|gb|EFH46242.1| hypothetical protein ARALYDRAFT_492911 [Arabidopsis lyrata subsp. lyrata]

 Score =  416 bits (1068), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 193/268 (72%), Positives = 240/268 (89%), Gaps = 3/268 (1%)

Query: 22  SKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMK 81
           + +L++ GVKD+IAVASGKGGVGKS+TAVNLAVALA+KC+LK+GLLDADVYGPSVP+MM 
Sbjct: 34  ATELRLHGVKDIIAVASGKGGVGKSSTAVNLAVALATKCELKIGLLDADVYGPSVPIMMN 93

Query: 82  IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
           I+QKP+V +DMKM+P+ENYGV+CMSMG LV   +P+VWRGPMVMSAL KM+R VDWG+LD
Sbjct: 94  INQKPQVNQDMKMIPVENYGVRCMSMGLLVEKDAPLVWRGPMVMSALAKMTRGVDWGDLD 153

Query: 142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
           ILV+DMPPGTGDAQ+T +Q L+LSGA+IVSTPQDVAL DA +GI+MF KV+VPILGLVEN
Sbjct: 154 ILVVDMPPGTGDAQITISQNLKLSGAVIVSTPQDVALADANRGISMFDKVRVPILGLVEN 213

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
           MSCF+CPHC+EPSFIFGK G  RTAA+ GLK+IGEIP+EM IR+GSD+GVPVV+S+P S 
Sbjct: 214 MSCFVCPHCNEPSFIFGKEGARRTAAKKGLKLIGEIPLEMSIREGSDEGVPVVVSSPGSI 273

Query: 262 VSRAYGEVAVNVVNRLQELAKEQEHPES 289
           VS+AY ++A+NVV  L+EL   +++P++
Sbjct: 274 VSKAYEDLALNVVKGLKEL---RDNPDN 298

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15235067|ref|NP_193689.1| ATP-binding protein involved in chromosome partitioning [Arabidopsis thaliana] gi|2853081|emb|CAA16931.1| ATP binding protein-like [Arabidopsis thaliana] gi|7268750|emb|CAB78956.1| ATP binding protein-like [Arabidopsis thaliana] gi|110737938|dbj|BAF00906.1| ATP binding protein - like [Arabidopsis thaliana] gi|332658796|gb|AEE84196.1| ATP-binding protein involved in chromosome partitioning [Arabidopsis thaliana]

 Score =  414 bits (1065), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 193/268 (72%), Positives = 239/268 (89%), Gaps = 3/268 (1%)

Query: 22  SKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMK 81
           + +L++ GVKD+IAVASGKGGVGKS+TAVNLAVALA+KC+LK+GLLDADVYGPSVP+MM 
Sbjct: 34  TTELRLHGVKDIIAVASGKGGVGKSSTAVNLAVALANKCELKIGLLDADVYGPSVPIMMN 93

Query: 82  IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
           I+QKP+V +DMKM+P+ENYGVKCMSMG LV   +P+VWRGPMVMSAL KM++ VDWG+LD
Sbjct: 94  INQKPQVNQDMKMIPVENYGVKCMSMGLLVEKDAPLVWRGPMVMSALAKMTKGVDWGDLD 153

Query: 142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
           ILV+DMPPGTGDAQ++ +Q L+LSGA+IVSTPQDVAL DA +GI+MF KV+VPILGLVEN
Sbjct: 154 ILVVDMPPGTGDAQISISQNLKLSGAVIVSTPQDVALADANRGISMFDKVRVPILGLVEN 213

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
           MSCF+CPHC+EPSFIFGK G  RTAA+ GLK+IGEIP+EM IR+GSD+GVPVV+S+P S 
Sbjct: 214 MSCFVCPHCNEPSFIFGKEGARRTAAKKGLKLIGEIPLEMSIREGSDEGVPVVVSSPGSI 273

Query: 262 VSRAYGEVAVNVVNRLQELAKEQEHPES 289
           VS+AY ++A NVV  L+EL   +E+P++
Sbjct: 274 VSKAYQDLAQNVVKGLKEL---RENPDN 298

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536802|ref|XP_003536923.1| PREDICTED: iron-sulfur protein NUBPL-like [Glycine max]

 Score =  414 bits (1064), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 195/270 (72%), Positives = 230/270 (85%), Gaps = 4/270 (1%)

Query: 10  RLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA 69
           RLG +R YA    K L+IDGVK+ IAVASGKGGVGKSTTAVNLAVALA KCQLKVGLLDA
Sbjct: 3   RLGSIRSYA----KHLRIDGVKNTIAVASGKGGVGKSTTAVNLAVALARKCQLKVGLLDA 58

Query: 70  DVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALR 129
           DVYGPS+P MM I+ KPEVT D KM+P+ENYG+KCMS+GFLV   +P+VWRGPMV +AL 
Sbjct: 59  DVYGPSIPTMMNINTKPEVTHDKKMIPVENYGIKCMSIGFLVEKDAPIVWRGPMVSNALE 118

Query: 130 KMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFS 189
           KM+R VDWGNLDILV+DMPPGTGD Q+  +Q LQLSGALIVSTPQDVAL+DAR+G+ MF+
Sbjct: 119 KMTRGVDWGNLDILVMDMPPGTGDVQIAMSQNLQLSGALIVSTPQDVALMDARRGVKMFN 178

Query: 190 KVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDD 249
           KV VPILG+VENMSCF CPHC EPS+IFGKGGT  TA+EMGL+ +GEIP+E++IR+  D 
Sbjct: 179 KVDVPILGIVENMSCFKCPHCGEPSYIFGKGGTQGTASEMGLEFLGEIPLEVEIREACDQ 238

Query: 250 GVPVVISAPDSTVSRAYGEVAVNVVNRLQE 279
           G P+V++APDS VSRAYGEVA  +  +L+E
Sbjct: 239 GRPIVLAAPDSVVSRAYGEVAEKLAQKLKE 268

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21537349|gb|AAM61690.1| ATP binding protein-like [Arabidopsis thaliana]

 Score =  412 bits (1060), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 191/259 (73%), Positives = 233/259 (89%)

Query: 22  SKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMK 81
           + +L++ GVKD+IAVASGKGGVGKS+TAVNLAVALA+KC+LK+GLLDADVYGPSVP+MM 
Sbjct: 34  TTELRLHGVKDIIAVASGKGGVGKSSTAVNLAVALANKCELKIGLLDADVYGPSVPIMMN 93

Query: 82  IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
           I+QKP+V +DMKM+P+ENYGVKCMSMG LV   +P+VWRGPMVMSAL KM++ VDWG+LD
Sbjct: 94  INQKPQVNQDMKMIPVENYGVKCMSMGLLVEKDAPLVWRGPMVMSALAKMTKGVDWGDLD 153

Query: 142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
           ILV+DMPPGTGDAQ++ +Q L+LSGA+IVSTPQDVAL DA +GI+MF KV+VPILGLVEN
Sbjct: 154 ILVVDMPPGTGDAQISISQNLKLSGAVIVSTPQDVALADANRGISMFDKVRVPILGLVEN 213

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
           MSCF+CPHC+EPSFIFGK G  RTAA+ GLK+IGEIP+EM IR+GSD+GVPVV+S+P S 
Sbjct: 214 MSCFVCPHCNEPSFIFGKEGARRTAAKKGLKLIGEIPLEMSIREGSDEGVPVVVSSPGSI 273

Query: 262 VSRAYGEVAVNVVNRLQEL 280
           VS+AY ++A NVV  L+EL
Sbjct: 274 VSKAYQDLAQNVVKGLKEL 292

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388502488|gb|AFK39310.1| unknown [Lotus japonicus]

 Score =  408 bits (1049), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 196/279 (70%), Positives = 231/279 (82%), Gaps = 7/279 (2%)

Query: 10  RLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA 69
           RLG VR+YA    K L+IDGVKD IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA
Sbjct: 5   RLGSVRHYA----KHLRIDGVKDTIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA 60

Query: 70  DVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALR 129
           DVYGP++P+MM I+ KPE T D KM+PIE YG+KCMS+GFLV    P+VWRGPMV  AL 
Sbjct: 61  DVYGPNIPIMMNINTKPEATLDKKMIPIEKYGIKCMSIGFLVEKDVPIVWRGPMVQKALE 120

Query: 130 KMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFS 189
           +M+R VDWGNLDILV+DMPPGTGD Q+  +Q LQLSGALIVSTPQDVAL+DAR+G+ MF+
Sbjct: 121 QMTRGVDWGNLDILVMDMPPGTGDVQIAMSQNLQLSGALIVSTPQDVALMDARRGVKMFN 180

Query: 190 KVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDD 249
           KV VPILG+VENMSCF CPHC EPS+IFGK GT +TA EMGL  +GEIP+E+++R+  D 
Sbjct: 181 KVDVPILGIVENMSCFKCPHCGEPSYIFGKEGTRKTATEMGLDFLGEIPLEVEVREACDK 240

Query: 250 GVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPE 288
           G P+V++APDS VSRAY +VA  VV +L+E   +Q  PE
Sbjct: 241 GHPIVLAAPDSVVSRAYVDVAEKVVQKLKE---QQFQPE 276

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147777913|emb|CAN75726.1| hypothetical protein VITISV_031406 [Vitis vinifera]

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 188/271 (69%), Positives = 232/271 (85%)

Query: 18  AAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP 77
           A F +K L++DGVK+++A+ASGKGGVGKSTTAVNLAVALA KCQLKVG+LDADVYGPSVP
Sbjct: 68  AGFSTKGLQLDGVKNIVAIASGKGGVGKSTTAVNLAVALAKKCQLKVGVLDADVYGPSVP 127

Query: 78  MMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDW 137
            MM +  +PEVT+D K+VP +NYGVKCMS+GFLVP  SP+VWRGPMV SAL K+SR VDW
Sbjct: 128 TMMNLHGEPEVTEDRKIVPFQNYGVKCMSIGFLVPKDSPLVWRGPMVASALEKLSRGVDW 187

Query: 138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILG 197
           GNLDILV+DMPPGTGD Q+T +Q LQL+G LIV+TPQDVALIDAR+G+TMFSKV+VPILG
Sbjct: 188 GNLDILVVDMPPGTGDTQITISQRLQLTGVLIVTTPQDVALIDARRGVTMFSKVEVPILG 247

Query: 198 LVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISA 257
           ++ENMSCF CP+C  PS+IFG GG  +TA EM L  +GEIP+E+DI K SD+GVP+V+SA
Sbjct: 248 IIENMSCFKCPNCGHPSYIFGNGGARKTADEMCLDYLGEIPLEVDIVKASDEGVPLVVSA 307

Query: 258 PDSTVSRAYGEVAVNVVNRLQELAKEQEHPE 288
           PDSTV++ Y ++A  +V+++ +LA EQ  PE
Sbjct: 308 PDSTVTKGYNDLAQKLVDKIGKLANEQLRPE 338

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	295
TAIR|locus:2122995	313	INDH "iron-sulfur protein requ	0.891	0.840	0.710	1.1e-101
UNIPROTKB|Q8TB37	319	NUBPL "Iron-sulfur protein NUB	0.864	0.799	0.578	1.3e-75
UNIPROTKB|E1BE32	331	NUBPL "Uncharacterized protein	0.864	0.770	0.570	1.5e-74
DICTYBASE|DDB_G0291193	323	nubpl "Mrp/NBP35 family protei	0.884	0.808	0.520	6.5e-74
RGD|1307232	319	Nubpl "nucleotide binding prot	0.867	0.802	0.564	8.4e-74
UNIPROTKB|E2REF1	333	NUBPL "Uncharacterized protein	0.884	0.783	0.549	1.7e-73
MGI|MGI:1924076	319	Nubpl "nucleotide binding prot	0.867	0.802	0.564	2.8e-73
ZFIN|ZDB-GENE-040718-140	330	nubpl "nucleotide binding prot	0.881	0.787	0.545	3.8e-69
UNIPROTKB|Q60CU7	361	MCA0052 "MrP protein" [Methylo	0.877	0.717	0.480	3.7e-68
UNIPROTKB|F1NG62	289	NUBPL "Uncharacterized protein	0.755	0.771	0.584	5.1e-67

TAIR|locus:2122995 INDH "iron-sulfur protein required for NADH dehydrogenase" [Arabidopsis thaliana (taxid:3702)]

 Score = 1008 (359.9 bits), Expect = 1.1e-101, P = 1.1e-101
 Identities = 189/266 (71%), Positives = 230/266 (86%)

Query:    24 DLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID 83
             +L++ GVKD+IAVASGKGGVGKS+TAVNLAVALA+KC+LK+GLLDADVYGPSVP+MM I+
Sbjct:    36 ELRLHGVKDIIAVASGKGGVGKSSTAVNLAVALANKCELKIGLLDADVYGPSVPIMMNIN 95

Query:    84 QKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDIL 143
             QKP+V +DMKM+P+ENYGVKCMSMG LV   +P+VWRGPMVMSAL KM++ VDWG+LDIL
Sbjct:    96 QKPQVNQDMKMIPVENYGVKCMSMGLLVEKDAPLVWRGPMVMSALAKMTKGVDWGDLDIL 155

Query:   144 VIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMS 203
             V+DMPPGTGDA          SGA+IVSTPQDVAL DA +GI+MF KV+VPILGLVENMS
Sbjct:   156 VVDMPPGTGDAQISISQNLKLSGAVIVSTPQDVALADANRGISMFDKVRVPILGLVENMS 215

Query:   204 CFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVS 263
             CF+CPHC+EPSFIFGK G  RTAA+ GLK+IGEIP+EM IR+GSD+GVPVV+S+P S VS
Sbjct:   216 CFVCPHCNEPSFIFGKEGARRTAAKKGLKLIGEIPLEMSIREGSDEGVPVVVSSPGSIVS 275

Query:   264 RAYGEVAVNVVNRLQELAKEQEHPES 289
             +AY ++A NVV  L+EL   +E+P++
Sbjct:   276 KAYQDLAQNVVKGLKEL---RENPDN 298

GO:0005739 "mitochondrion" evidence=ISM;IDA

UNIPROTKB|Q8TB37 NUBPL "Iron-sulfur protein NUBPL" [Homo sapiens (taxid:9606)]

 Score = 762 (273.3 bits), Expect = 1.3e-75, P = 1.3e-75
 Identities = 148/256 (57%), Positives = 184/256 (71%)

Query:    23 KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
             K   I+GVK VI VASGKGGVGKSTTAVNLA+ALA+    K +GLLD DVYGPSVP MM 
Sbjct:    59 KQKPIEGVKQVIVVASGKGGVGKSTTAVNLALALAANDSSKAIGLLDVDVYGPSVPKMMN 118

Query:    82 IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
             +   PE+++   M P+ NYG+ CMSMGFLV  S PVVWRG MVMSA+ K+ R+VDWG LD
Sbjct:   119 LKGNPELSQSNLMRPLLNYGIACMSMGFLVEESEPVVWRGLMVMSAIEKLLRQVDWGQLD 178

Query:   142 ILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
              LV+DMPPGTGD           +GA+IVSTPQD+AL+DA KG  MF +V VP+LGLV+N
Sbjct:   179 YLVVDMPPGTGDVQLSVSQNIPITGAVIVSTPQDIALMDAHKGAEMFRRVHVPVLGLVQN 238

Query:   202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
             MS F CP C   + IFG  G  + A  +GL+V+G+IP+ ++IR+ SD G P+V S P+S 
Sbjct:   239 MSVFQCPKCKHKTHIFGADGARKLAQTLGLEVLGDIPLHLNIREASDTGQPIVFSQPESD 298

Query:   262 VSRAYGEVAVNVVNRL 277
              ++AY  +AV VV RL
Sbjct:   299 EAKAYLRIAVEVVRRL 314

GO:0005524 "ATP binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IDA

GO:0070584 "mitochondrion morphogenesis" evidence=IMP

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IMP

UNIPROTKB|E1BE32 NUBPL "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 752 (269.8 bits), Expect = 1.5e-74, P = 1.5e-74
 Identities = 146/256 (57%), Positives = 182/256 (71%)

Query:    23 KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
             K   I+GVK VI VASGKGGVGKSTTAVNLA+ALA+    K VGLLD DVYGPS+P MM 
Sbjct:    59 KQKPIEGVKQVIVVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMN 118

Query:    82 IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
             +   PE+++   M P+ NYG+ CMSMGFLV  ++P+VWRG MVMSA+ K+ R+VDWG LD
Sbjct:   119 LKGNPELSQSNLMRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLD 178

Query:   142 ILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
              LV+DMPPGTGD           SGA+IVSTPQD+AL+DA KG  MF KV VP+LGLV+N
Sbjct:   179 YLVVDMPPGTGDVQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVHVPVLGLVQN 238

Query:   202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
             MS F CP C   + IFG  G  R A  + L ++G+IP+ ++IR+ SD G P+V S P+S 
Sbjct:   239 MSVFQCPKCKHKTHIFGADGARRLARTLDLDILGDIPLHLNIREASDTGQPIVFSQPESD 298

Query:   262 VSRAYGEVAVNVVNRL 277
              ++AY  +A  VV RL
Sbjct:   299 EAKAYLRIATEVVRRL 314

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

DICTYBASE|DDB_G0291193 nubpl "Mrp/NBP35 family protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 746 (267.7 bits), Expect = 6.5e-74, P = 6.5e-74
 Identities = 138/265 (52%), Positives = 192/265 (72%)

Query:    27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMM--KIDQ 84
             I+G+K++IAV+S KGGVGKST AVN+A+ L+S   L VGLLD DV+GPS+P+MM  K  +
Sbjct:    53 IEGIKNIIAVSSAKGGVGKSTCAVNIALGLSSH-NLSVGLLDVDVFGPSIPLMMDLKNHE 111

Query:    85 KPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILV 144
             KP   +  +M+P++NYG+KCMSMGFLV    P++WRGPMV SAL K+ R+ DWG+LD+LV
Sbjct:   112 KPFTNELNQMIPLQNYGIKCMSMGFLVNEDDPIIWRGPMVGSALEKLLRQTDWGHLDVLV 171

Query:   145 IDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC 204
              D+PPGTGDA          +GA+IVSTPQDVAL D  +G+ MF KV+VPILGLVENMS 
Sbjct:   172 CDLPPGTGDAILTMCQRVPLTGAVIVSTPQDVALADVVRGVNMFKKVEVPILGLVENMSY 231

Query:   205 FICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSR 264
             F CPHC+E + IFG  G   TA +MG+  +G++PI + IR+ SD G P+ ++ PDS  ++
Sbjct:   232 FNCPHCNESTHIFGNEGAKNTAKKMGINFLGDVPIHLQIRETSDSGKPITVTQPDSPQAK 291

Query:   265 AYGEVAVNVVNRLQELAKEQEHPES 289
              Y +++  ++ +L E+    E+ ++
Sbjct:   292 NYKDISKEIIKQL-EIINNDENKDN 315

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

RGD|1307232 Nubpl "nucleotide binding protein-like" [Rattus norvegicus (taxid:10116)]

 Score = 745 (267.3 bits), Expect = 8.4e-74, P = 8.4e-74
 Identities = 145/257 (56%), Positives = 183/257 (71%)

Query:    23 KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
             K   I+GV++VI VASGKGGVGKSTTAVNLA+ALA+    K VGLLD DVYGPS+P MM 
Sbjct:    59 KQKPIEGVREVIVVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMN 118

Query:    82 IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
             +   PE++ +  M P+ NYG+ CMSMGFLV  ++P+VWRG MVMSA+ K+ R+VDWG LD
Sbjct:   119 LKGNPELSPNNLMRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLD 178

Query:   142 ILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
              LV+DMPPGTGD           SGA+IVSTPQD+AL+DA KG  MF KV VP+LGLV+N
Sbjct:   179 YLVVDMPPGTGDVQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVNVPVLGLVQN 238

Query:   202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
             MS F CP C   + IFG  G  + A  + L V+G++P+ + IR+ SD G PVV S P+S 
Sbjct:   239 MSVFQCPQCKHKTHIFGADGARKLAQTLDLDVLGDVPLHLSIREASDMGQPVVFSQPESD 298

Query:   262 VSRAYGEVAVNVVNRLQ 278
              ++AY  +A  VV RL+
Sbjct:   299 EAKAYLNIASEVVRRLK 315

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

UNIPROTKB|E2REF1 NUBPL "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 742 (266.3 bits), Expect = 1.7e-73, P = 1.7e-73
 Identities = 144/262 (54%), Positives = 183/262 (69%)

Query:    23 KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
             K   I+GVK VI VASGKGGVGKSTTAVNLA+ LA+    K VGLLD DVYGPS+P MM 
Sbjct:    63 KQKPIEGVKQVIVVASGKGGVGKSTTAVNLALGLAANDSSKAVGLLDVDVYGPSIPKMMN 122

Query:    82 IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
             +   PE++++  M P+ NYG+ CMSMGFL+  ++PVVWRG MVMSA+ K+ R+VDWG LD
Sbjct:   123 LKGNPELSQNNLMRPLLNYGIACMSMGFLIEETAPVVWRGLMVMSAIEKLLRQVDWGPLD 182

Query:   142 ILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
              LV+D PPGTGD           SGA+IVSTPQD+AL+DA KG  MF KV VP+LGL++N
Sbjct:   183 YLVVDTPPGTGDVQLSISQNIPISGAVIVSTPQDIALVDAHKGAEMFRKVHVPVLGLIQN 242

Query:   202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
             MS F CP C   + IFG  G  R A  + L ++G+IP+ ++IR+ SD G P+V S P+S 
Sbjct:   243 MSVFQCPKCKHRTHIFGADGARRLAQTLDLDILGDIPLHLNIRETSDTGQPIVFSQPESD 302

Query:   262 VSRAYGEVAVNVVNRLQELAKE 283
              ++AY  +A  VV RL    K+
Sbjct:   303 EAKAYLRIAAEVVRRLPPPLKD 324

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

MGI|MGI:1924076 Nubpl "nucleotide binding protein-like" [Mus musculus (taxid:10090)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 145/257 (56%), Positives = 182/257 (70%)

Query:    23 KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
             K   I+GV++VI VASGKGGVGKSTTAVNLA+ALA+    K VGLLD DVYGPS+P MM 
Sbjct:    59 KQKPIEGVREVIVVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMN 118

Query:    82 IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
             +   PE++ +  M P+ NYG+ CMSMGFLV  ++P+VWRG MVMSA+ K+ R+VDWG LD
Sbjct:   119 LRGNPELSPNNLMRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLD 178

Query:   142 ILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
              LV+DMPPGTGD           SGA+IVSTPQD+AL+DA KG  MF KV VP+LGLV+N
Sbjct:   179 YLVVDMPPGTGDVQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVNVPVLGLVQN 238

Query:   202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
             MS F CP C   + IFG  G  + A  + L V+G++P+ + IR+ SD G PVV S P S 
Sbjct:   239 MSVFQCPKCKHKTHIFGADGARKLAQTLDLDVLGDVPLHLSIREASDMGQPVVFSQPGSD 298

Query:   262 VSRAYGEVAVNVVNRLQ 278
              ++AY  +A  VV RL+
Sbjct:   299 EAKAYLHIASEVVRRLK 315

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=ISO

GO:0070584 "mitochondrion morphogenesis" evidence=ISO

ZFIN|ZDB-GENE-040718-140 nubpl "nucleotide binding protein-like" [Danio rerio (taxid:7955)]

 Score = 701 (251.8 bits), Expect = 3.8e-69, P = 3.8e-69
 Identities = 144/264 (54%), Positives = 183/264 (69%)

Query:    23 KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
             K   I GVK+VI VASGKGGVGKSTTAVNLA+ L +  Q K VGLLDADV+GPSVP +M 
Sbjct:    67 KQKPIAGVKEVIVVASGKGGVGKSTTAVNLALGLMANEQSKLVGLLDADVFGPSVPKLMN 126

Query:    82 IDQKPEVTKDMKMVPIENYGVKC---MSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWG 138
             +   PE+T++       N  +     MS+GFLV   +P+VWRG MVMSA+ K+ R+VDWG
Sbjct:   127 LKGNPELTENNVFKRFLNVCLPVLYSMSIGFLVEDVAPIVWRGLMVMSAIEKLIRQVDWG 186

Query:   139 NLDILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGL 198
             NLD LVIDMPPGTGD           +GA+IVSTPQD+AL+DAR+G  MF KV VP+LGL
Sbjct:   187 NLDYLVIDMPPGTGDVQLSITQNIPIAGAVIVSTPQDIALMDARRGAEMFRKVNVPVLGL 246

Query:   199 VENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAP 258
             V+NMS F CP C+  + IFG  G    A  +G++++G+IP+ ++IR+ SD G PVV+S+P
Sbjct:   247 VQNMSVFQCPKCNHQTHIFGSDGAKELAQTLGVELLGDIPLHLNIRETSDMGQPVVVSSP 306

Query:   259 DSTVSRAYGEVAVNVVNRLQELAK 282
             DS  + AY  +A  VV RL E  K
Sbjct:   307 DSPEAEAYRRIAAAVVRRLAEHLK 330

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q60CU7 MCA0052 "MrP protein" [Methylococcus capsulatus str. Bath (taxid:243233)]

 Score = 667 (239.9 bits), Expect = 3.7e-68, Sum P(2) = 3.7e-68
 Identities = 126/262 (48%), Positives = 187/262 (71%)

Query:    23 KDLK-IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMK 81
             K LK + GV+++IAVASGKGGVGKSTTAVNLA+ALA +   +VG+LDAD++GPS P+M+ 
Sbjct:    89 KGLKPMPGVRNIIAVASGKGGVGKSTTAVNLALALAGE-GARVGILDADIHGPSQPLMLG 147

Query:    82 IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
             +  +PE T+  K+ PI  +G++ MS+G+L+   +P++WRGPMV+ AL+++  +  W +LD
Sbjct:   148 VSGRPE-TEGRKIHPIVAHGLQSMSIGYLIDEDTPMIWRGPMVVGALQQLLNDTLWEDLD 206

Query:   142 ILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
              L++D+PPGTGD           SGA+IV+TPQD+AL+DA+KG+ MF KV +P+LG++EN
Sbjct:   207 YLIVDLPPGTGDIQLSLAQQIPVSGAVIVTTPQDIALLDAQKGLKMFEKVSIPVLGIIEN 266

Query:   202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
             MS  +C  C     IFG+GG  + A + G +++G++P++  IR+ +D G P VI+APDS 
Sbjct:   267 MSVHVCSRCGHAEPIFGEGGGEKMAQKYGTELLGQLPLDRSIREDADGGRPTVIAAPDSE 326

Query:   262 VSRAYGEVAVNVVNRLQELAKE 283
              +R Y  +A  V  RL   AK+
Sbjct:   327 PARMYRSIARKVAARLALKAKD 348

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|F1NG62 NUBPL "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 681 (244.8 bits), Expect = 5.1e-67, P = 5.1e-67
 Identities = 131/224 (58%), Positives = 162/224 (72%)

Query:    23 KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLLDADVYGPSVPMMMK 81
             K   I+GVK V+ VASGKGGVGKST AVN+A+ALA+    K VGLLDAD+YGPS+P MM 
Sbjct:    64 KQKPIEGVKQVLVVASGKGGVGKSTAAVNIALALAANDSAKEVGLLDADIYGPSIPKMMN 123

Query:    82 IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
             +   PE+T    M P++NYG+ CMSMGFL+  ++PVVWRG MVMSA+ K+ R+VDWG LD
Sbjct:   124 LKGNPELTPKNLMRPLKNYGIACMSMGFLIEEAAPVVWRGLMVMSAVEKLLRQVDWGQLD 183

Query:   142 ILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
              LVIDMPPGTGD           +GA+I+STPQDVAL+DARKG  MF KV VP+LGLV+N
Sbjct:   184 YLVIDMPPGTGDVQLSISQNIPIAGAVIISTPQDVALLDARKGTEMFRKVHVPVLGLVQN 243

Query:   202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRK 245
             MS F CP C   + IFG  G    A  +GL V+G+IP+ + IR+
Sbjct:   244 MSVFRCPKCEHETHIFGADGVRDLAKTLGLDVLGDIPLHVTIRE 287

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O66946	MRP_AQUAE	No assigned EC number	0.5222	0.8271	0.6703	yes	no
P0AF09	MRP_ECOL6	No assigned EC number	0.5039	0.8474	0.6775	yes	no
Q57731	Y283_METJA	No assigned EC number	0.4246	0.8338	0.8482	yes	no
O58667	Y949_PYRHO	No assigned EC number	0.4633	0.8271	0.8271	yes	no
Q8U1R0	Y1145_PYRFU	No assigned EC number	0.4496	0.8305	0.8305	yes	no
Q9V0D9	Y851_PYRAB	No assigned EC number	0.4356	0.8440	0.8440	yes	no
Q8TB37	NUBPL_HUMAN	No assigned EC number	0.5898	0.8644	0.7993	yes	no
P72190	YCAB_PSEFR	No assigned EC number	0.5081	0.8169	0.8397	N/A	no
Q9CWD8	NUBPL_MOUSE	No assigned EC number	0.5758	0.8677	0.8025	yes	no
Q54F15	NUBPL_DICDI	No assigned EC number	0.5363	0.8745	0.7987	yes	no
Q5I0L4	NUBP1_RAT	No assigned EC number	0.4021	0.8711	0.8031	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00051274	hypothetical protein (293 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_Genewise1_v1.C_LG_VII0255	cysteine desulfurase/transaminase (EC-2.8.1.7) (452 aa)	•						•		0.445
	fgenesh4_pg.C_scaffold_15960000001	Predicted protein (371 aa)	•						•		0.425

---

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	295
PRK11670	369	PRK11670, PRK11670, antiporter inner membrane prot	1e-102
cd02037	169	cd02037, MRP-like, MRP (Multiple Resistance and pH	2e-94
COG0489	265	COG0489, Mrp, ATPases involved in chromosome parti	5e-71
pfam10609	81	pfam10609, ParA, ParA/MinD ATPase like	5e-48
COG0455	262	COG0455, flhG, Antiactivator of flagellar biosynth	7e-23
cd02036	179	cd02036, MinD, Bacterial cell division requires th	7e-21
TIGR01969	251	TIGR01969, minD_arch, cell division ATPase MinD, a	1e-20
COG1192	259	COG1192, Soj, ATPases involved in chromosome parti	1e-15
COG1149	284	COG1149, COG1149, MinD superfamily P-loop ATPase c	2e-15
pfam01656	217	pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide bi	5e-15
cd03110	179	cd03110, Fer4_NifH_child, This protein family's fu	2e-12
cd02042	104	cd02042, ParA, ParA and ParB of Caulobacter cresce	3e-12
cd02038	139	cd02038, FleN-like, FleN is a member of the Fer4_N	1e-11
pfam13614	145	pfam13614, AAA_31, AAA domain	1e-10
COG2894	272	COG2894, MinD, Septum formation inhibitor-activati	3e-08
cd03111	106	cd03111, CpaE_like, This protein family consists o	5e-08
cd01983	99	cd01983, Fer4_NifH, The Fer4_NifH superfamily cont	1e-07
TIGR03018	207	TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-	1e-07
TIGR01968	261	TIGR01968, minD_bact, septum site-determining prot	1e-06
cd02035	217	cd02035, ArsA, ArsA ATPase functionas as an efflux	1e-06
CHL00175	281	CHL00175, minD, septum-site determining protein; V	3e-06
pfam09140	262	pfam09140, MipZ, ATPase MipZ	5e-06
COG0003	322	COG0003, ArsA, Predicted ATPase involved in chromo	5e-05
PHA02518	211	PHA02518, PHA02518, ParA-like protein; Provisional	7e-05
TIGR01007	204	TIGR01007, eps_fam, capsular exopolysaccharide fam	1e-04
TIGR03029	274	TIGR03029, EpsG, chain length determinant protein	1e-04
pfam00142	272	pfam00142, Fer4_NifH, 4Fe-4S iron sulfur cluster b	2e-04
TIGR03815	322	TIGR03815, CpaE_hom_Actino, helicase/secretion nei	2e-04
PRK13185	270	PRK13185, chlL, protochlorophyllide reductase iron	3e-04
cd02040	270	cd02040, NifH, NifH gene encodes component II (iro	3e-04
PRK13230	279	PRK13230, PRK13230, nitrogenase reductase-like pro	4e-04
cd02034	116	cd02034, CooC, The accessory protein CooC, which c	6e-04
cd02117	212	cd02117, NifH_like, This family contains the NifH	7e-04
cd02032	267	cd02032, Bchl_like, This family of proteins contai	8e-04
PRK13231	264	PRK13231, PRK13231, nitrogenase reductase-like pro	8e-04
TIGR03371	246	TIGR03371, cellulose_yhjQ, cellulose synthase oper	0.003
COG1348	278	COG1348, NifH, Nitrogenase subunit NifH (ATPase) [	0.004
TIGR01281	268	TIGR01281, DPOR_bchL, light-independent protochlor	0.004

>gnl|CDD|183270 PRK11670, PRK11670, antiporter inner membrane protein; Provisional

 Score =  302 bits (775), Expect = e-102
 Identities = 126/252 (50%), Positives = 179/252 (71%), Gaps = 2/252 (0%)

Query: 27  IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKI-DQK 85
           ++GVK++IAV+SGKGGVGKS+TAVNLA+ALA++   KVG+LDAD+YGPS+P M+   DQ+
Sbjct: 103 VNGVKNIIAVSSGKGGVGKSSTAVNLALALAAE-GAKVGILDADIYGPSIPTMLGAEDQR 161

Query: 86  PEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVI 145
           P       M PI  +G+   S+G+LV   + +VWRGPM   AL +M +E  W +LD LV+
Sbjct: 162 PTSPDGTHMAPIMAHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVL 221

Query: 146 DMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF 205
           DMPPGTGD QLT  Q + ++GA++V+TPQD+ALIDA+KGI MF KV+VP+LG+VENMS  
Sbjct: 222 DMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSMH 281

Query: 206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRA 265
           IC +C     IFG GG  + A +   +++G++P+ + +R+  D G P V+S P+S  +  
Sbjct: 282 ICSNCGHHEPIFGTGGAEKLAEKYHTQLLGQMPLHISLREDLDRGTPTVVSRPESEFTAI 341

Query: 266 YGEVAVNVVNRL 277
           Y ++A  V  +L
Sbjct: 342 YRQLADRVAAQL 353

Length = 369

>gnl|CDD|238994 cd02037, MRP-like, MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

 Score =  275 bits (706), Expect = 2e-94
 Identities = 108/209 (51%), Positives = 133/209 (63%), Gaps = 40/209 (19%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
           VIAV SGKGGVGKST AVNLA+ALA     KVGLLDAD+YGPS+P M             
Sbjct: 1   VIAVMSGKGGVGKSTVAVNLALALAKL-GYKVGLLDADIYGPSIPKM------------- 46

Query: 93  KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTG 152
                                     WRGPM M A+++   +VDWG LD LVIDMPPGTG
Sbjct: 47  --------------------------WRGPMKMGAIKQFLTDVDWGELDYLVIDMPPGTG 80

Query: 153 DAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSE 212
           D  LT  Q+L + GA+IV+TPQ+VAL D RK I MF KV +PILG+VENMS F+CPHC +
Sbjct: 81  DEHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFVCPHCGK 140

Query: 213 PSFIFGKGGTHRTAAEMGLKVIGEIPIEM 241
             +IFGKGG  + A E+G+ ++G+IP++ 
Sbjct: 141 KIYIFGKGGGEKLAEELGVPLLGKIPLDP 169

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter. Length = 169

>gnl|CDD|223563 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score =  219 bits (561), Expect = 5e-71
 Identities = 98/226 (43%), Positives = 133/226 (58%), Gaps = 16/226 (7%)

Query: 26  KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK 85
              GVK+VIAV SGKGGVGKST AVNLA ALA     +V LLDAD+ GPS+P M+ ++  
Sbjct: 52  LRKGVKNVIAVTSGKGGVGKSTVAVNLAAALAQL-GKRVLLLDADLRGPSIPRMLGLENL 110

Query: 86  ---PEVTKDMKMVPIE-NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLD 141
               E+     + P+  + G+K +S+  L P   PV+ RG +   A+ ++  +V WG  D
Sbjct: 111 PGLTELLAGEALEPVIQHDGIKVLSILPLGPV--PVIPRGLLGSKAMLQLLEDVLWGEYD 168

Query: 142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
            ++ID PPGTGDA  T  Q +   G +IV+TP   AL D +K I M  K  +P+LG+VEN
Sbjct: 169 YVIIDTPPGTGDADATVLQRIPD-GVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVEN 227

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGS 247
           MS FICP C       G+GG  + A   G   +G IP++   R+ S
Sbjct: 228 MSYFICPRC-------GEGGGEKYAERYG-PYLGSIPLDPSAREAS 265

Length = 265

>gnl|CDD|204531 pfam10609, ParA, ParA/MinD ATPase like

 Score =  154 bits (392), Expect = 5e-48
 Identities = 54/81 (66%), Positives = 64/81 (79%)

Query: 140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLV 199
           LD L+ID+PPGTGD  LT  Q+L + GA+IV+TPQDVAL+D RK I MF KV VPILG+V
Sbjct: 1   LDYLLIDLPPGTGDEHLTLAQSLPVDGAVIVTTPQDVALLDVRKAIDMFKKVNVPILGVV 60

Query: 200 ENMSCFICPHCSEPSFIFGKG 220
           ENMS F+CP C E  +IFGKG
Sbjct: 61  ENMSYFVCPDCGEKIYIFGKG 81

This family contains ATPases involved in plasmid partitioning. It also contains the cytosolic Fe-S cluster assembling factor NBP35 which is required for biogenesis and export of both ribosomal subunits. Length = 81

>gnl|CDD|223531 COG0455, flhG, Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

 Score = 94.6 bits (236), Expect = 7e-23
 Identities = 65/261 (24%), Positives = 106/261 (40%), Gaps = 52/261 (19%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP----EV 88
           VIAV SGKGGVGK+T   NL  ALA+     V L+DAD+   ++ +++ ++ KP    +V
Sbjct: 4   VIAVVSGKGGVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESKPTTLHDV 63

Query: 89  TKDMK-----MVPIENYGVKCMSMGFLVPSSS---------PVVWRGPMVMSALRKMSRE 134
                     +      G+       ++P  S         P       V+  L ++   
Sbjct: 64  LAGEASIEDIIYETPQDGLY------VLPGGSGLEDLAKLDPEDLED--VIKELEEL--- 112

Query: 135 VDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVP 194
                 D ++ID   G      T +  L     +IV+TP+  ++ DA K I + SK    
Sbjct: 113 -----YDYILIDTGAGLSRD--TLSFILSSDELVIVTTPEPTSITDAYKTIKILSK---- 161

Query: 195 ILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEM-----GLKVIGEIPIEMDIRKGSDD 249
            LGL       +                     ++      L+VI   P    +R+   +
Sbjct: 162 -LGLDLLGRRVVLNRVRSTK---EGVDVAALLIQVVKQVPVLQVIPFDPE---VRRALAE 214

Query: 250 GVPVVISAPDSTVSRAYGEVA 270
           G P+V+ +P+S  S+A  E+A
Sbjct: 215 GKPIVLYSPNSKASQAIKELA 235

Length = 262

>gnl|CDD|238993 cd02036, MinD, Bacterial cell division requires the formation of a septum at mid-cell

 Score = 87.2 bits (217), Expect = 7e-21
 Identities = 56/236 (23%), Positives = 99/236 (41%), Gaps = 59/236 (25%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVT-KD 91
           VI V SGKGGVGK+TT  NL  ALA +   KV L+DAD+   ++ +++ ++ +   T  D
Sbjct: 1   VIVVTSGKGGVGKTTTTANLGTALA-QLGYKVVLIDADLGLRNLDLILGLENRVVYTLHD 59

Query: 92  MKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGT 151
                                     V  G  +                   +ID P G 
Sbjct: 60  --------------------------VLAGDYI-------------------LIDSPAGI 74

Query: 152 GDAQLTTTQTLQLS-GALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHC 210
              +      +  +  AL+V+TP+  +L DA +   +   + + ++G++ N         
Sbjct: 75  ---ERGFITAIAPADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNR-------- 123

Query: 211 SEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAY 266
             P  + G          +G+ ++G IP +  + + ++ G PVV++ P S  ++AY
Sbjct: 124 VRPDMVEGGDMVEDIEEILGVPLLGVIPEDPAVIRATNRGEPVVLNKPKSPAAQAY 179

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer. Length = 179

>gnl|CDD|131024 TIGR01969, minD_arch, cell division ATPase MinD, archaeal

 Score = 88.2 bits (219), Expect = 1e-20
 Identities = 71/256 (27%), Positives = 115/256 (44%), Gaps = 40/256 (15%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
           +I +ASGKGG GK+T   NL VALA K   KV  LDAD+   ++ +++ ++ KP    D+
Sbjct: 2   IITIASGKGGTGKTTITANLGVALA-KLGKKVLALDADITMANLELILGMEDKPVTLHDV 60

Query: 93  --------KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSA--LRKMSREVDWGNLDI 142
                     +    +GVK      ++P+   V   G        L  + +E+   + D 
Sbjct: 61  LAGEADIKDAIYEGPFGVK------VIPAG--VSLEGLRKADPDKLEDVLKEII-DDTDF 111

Query: 143 LVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENM 202
           L+ID P G     +T          L+V  P+  ++ DA K   +  K+   ILG+V N 
Sbjct: 112 LLIDAPAGLERDAVTALAAAD--ELLLVVNPEISSITDALKTKIVAEKLGTAILGVVLNR 169

Query: 203 SCFICPHCSEPSFIFGKGGTH--RTAAEMGL--KVIGEIPIEMDIRKGSDDGVPVVISAP 258
                           +  T   R   E  L   V+G +P + ++R+ +  G PVVI  P
Sbjct: 170 --------------VTRDKTELGREEIETILEVPVLGVVPEDPEVRRAAAFGEPVVIYNP 215

Query: 259 DSTVSRAYGEVAVNVV 274
           +S  ++A+ E+A  + 
Sbjct: 216 NSPAAQAFMELAAELA 231

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown. Length = 251

>gnl|CDD|224113 COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 74.5 bits (183), Expect = 1e-15
 Identities = 59/278 (21%), Positives = 100/278 (35%), Gaps = 54/278 (19%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD------------VYGPSVPMMM 80
           +IAVA+ KGGVGK+TTAVNLA ALA +   KV L+D D                     +
Sbjct: 4   IIAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLIDLDPQGSLTSWLGLRPDLEGDLYNL 63

Query: 81  KIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPS----SSPVVWRGPMVM--SALRKMSRE 134
               K         V IE           L+PS    +         V     L+++   
Sbjct: 64  LSGLKERPDILDYTVVIEGL--------DLIPSNIDLAEGAEIELNAVAKELLLKRLLDP 115

Query: 135 VDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQ-- 192
           V   + D ++ID PP  G   LT          LI   P+ + L    + +     +   
Sbjct: 116 V-KDDYDYIIIDTPPSLGV--LTLNALAAADHVLIPVQPEFLDLEGLEQLLNTLEDLLKL 172

Query: 193 ----VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRK--- 245
               + ++G++                   +        +   +++G+  ++  I +   
Sbjct: 173 RRNKLIVVGILITR-------------FDSRTKLADEVLQELKQLLGDPVLKTKIPRRVA 219

Query: 246 ---GSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQEL 280
               + +G P+    P S  +  Y E+A  ++  L +L
Sbjct: 220 YREAAAEGKPLYEYDPKSKAAEEYYELAKELLEELLKL 257

Length = 259

>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

 Score = 74.7 bits (184), Expect = 2e-15
 Identities = 71/307 (23%), Positives = 118/307 (38%), Gaps = 103/307 (33%)

Query: 34  IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID---------- 83
           +AVASGKGG GK+T A NLAV L  K   K+ L D DV  P++ +++ ++          
Sbjct: 4   VAVASGKGGTGKTTVAANLAVLLGDK--YKLVLADCDVEAPNLHLLLGVEVLEEEEVIRG 61

Query: 84  QKPEVTKD----------------MKMVPIENYGV---KC-------------------M 105
           + PE+  +                + ++P     +    C                   +
Sbjct: 62  EIPEIDPEKCIRCGKCAEVCRFGAIVVLPGGKPVLNPDLCEGCGACSIVCPEPAIEEEPV 121

Query: 106 SMGFLVPSSSPVVWRGPMVM--------------SALRKMSREVDWGNLDILVIDMPPGT 151
            +G +  S +   +  P++               +AL+K ++E      D+L+ID   GT
Sbjct: 122 VIGKIYESKTD--YGFPLISGRLNVGEEESGKLVTALKKHAKE----LADLLIIDSAAGT 175

Query: 152 G--------DAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMS 203
           G         A L          A++V+ P    L D ++ + +     +P  G+V N  
Sbjct: 176 GCPVIASLKGADL----------AILVTEPTPFGLHDLKRALELVEHFGIPT-GIVIN-- 222

Query: 204 CFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVS 263
                      +  G         E G+ ++GEIP + DI +   +G P V   PDS  +
Sbjct: 223 ----------RYNLGDSEIEEYCEEEGIPILGEIPYDKDIPEAYVNGEPFVE--PDSKEA 270

Query: 264 RAYGEVA 270
            A  E A
Sbjct: 271 EAILEEA 277

Length = 284

>gnl|CDD|216631 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain

 Score = 72.1 bits (177), Expect = 5e-15
 Identities = 52/184 (28%), Positives = 84/184 (45%), Gaps = 20/184 (10%)

Query: 34  IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMK 93
           IA+A  KGGVGK+T A NLA ALA K   +V L+D D    +   + K+++      ++ 
Sbjct: 1   IAIAGTKGGVGKTTLAANLARALA-KRGYRVLLIDLDPQANNSSYLGKVEEVLPEGLEIV 59

Query: 94  MVP----IENYGVKCMSMG--FLVPSS-------SPVVWRGPMVMSALRKMSREVDWGNL 140
                  I    V   ++    L+PS+       S ++  G    S LR     +     
Sbjct: 60  DAQALQAIAAAIVPSRNLDPLLLIPSNLSLENFESELIVEG-KRESRLRAALESLIKLAY 118

Query: 141 DILVIDMPPGTGDAQLTTTQTLQLS-GALIVSTPQDVALIDARKGITMFSKVQVP-ILGL 198
           D ++ID PPG G+    T   L  +   ++   P+ VA+  A++ + +   + V  ILG+
Sbjct: 119 DYVIIDGPPGLGE---LTANALVAADILVVPIEPEGVAVEGAQRLLELIEDLGVLDILGV 175

Query: 199 VENM 202
           V N 
Sbjct: 176 VLNK 179

This family consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from S.typhimurium, and CobQ from R. capsulatus. These amidases catalyze amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria. The family also contains dethiobiotin synthetases as well as the plasmid partitioning proteins of the MinD/ParA family. Length = 217

>gnl|CDD|239384 cd03110, Fer4_NifH_child, This protein family's function is unkown

 Score = 64.2 bits (157), Expect = 2e-12
 Identities = 53/217 (24%), Positives = 93/217 (42%), Gaps = 51/217 (23%)

Query: 34  IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMK--IDQKPEVTKD 91
           IAV SGKGG GK+T    LA  L       V L D DV  P++ + +K  I+++ +    
Sbjct: 2   IAVISGKGGTGKTTVTAALAALLK-----NVVLADCDVDAPNLHLFLKPEIEEEEDFIVG 56

Query: 92  MKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREV-DWGNLDILVIDMPPG 150
            K   I+     C+S G               +++ +RK ++E+      ++++ID PPG
Sbjct: 57  GKKAVIDPE--LCISCGLCGK-----------LVTEVRKHAKEIAKAEGAELIIIDGPPG 103

Query: 151 TGDAQLTTTQTLQLSGA---LIVSTPQDVALIDARKGITMFSKVQVPIL------GLVEN 201
            G   + +     L+GA   L+V+ P    L D  + + +     +P+        L + 
Sbjct: 104 IGCPVIAS-----LTGADAALLVTEPTPSGLHDLERAVELVRHFGIPVGVVINKYDLNDE 158

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIP 238
           ++  I  +C                 E G+ ++G+IP
Sbjct: 159 IAEEIEDYC----------------EEEGIPILGKIP 179

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion. Length = 179

>gnl|CDD|238997 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

 Score = 61.5 bits (150), Expect = 3e-12
 Identities = 25/38 (65%), Positives = 30/38 (78%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          VIAVA+ KGGVGK+TTAVNLA ALA +   +V L+D D
Sbjct: 1  VIAVANQKGGVGKTTTAVNLAAALARR-GKRVLLIDLD 37

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition. Length = 104

>gnl|CDD|238995 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily

 Score = 60.6 bits (148), Expect = 1e-11
 Identities = 24/38 (63%), Positives = 29/38 (76%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          +IAV SGKGGVGK+  + NLA+ALA K   +V LLDAD
Sbjct: 1  IIAVTSGKGGVGKTNISANLALALA-KLGKRVLLLDAD 37

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity. Length = 139

>gnl|CDD|222264 pfam13614, AAA_31, AAA domain

 Score = 58.4 bits (142), Expect = 1e-10
 Identities = 42/158 (26%), Positives = 69/158 (43%), Gaps = 31/158 (19%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK--PEV-- 88
           VI V S  GG GK+T A+NLA +LA +   KV  LD + Y   + + + ++ K   ++  
Sbjct: 2   VIGVYSPVGGEGKTTFALNLAQSLA-EEGPKVLYLDLEEYSGDLALFLGLEPKGLSDLLY 60

Query: 89  -TKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNL------- 140
             K +  + I+  G     + +L P  +P           LR++S E +W  L       
Sbjct: 61  YLKRLDSMLIQAMGG----LDYLAPPRNP---------EDLREVSPE-EWEQLLERLRER 106

Query: 141 -DILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA 177
            D++V+D+ P            L L   + +    DVA
Sbjct: 107 YDVIVLDLGPLVPSD---FALVLSLCDRVYLVVRADVA 141

This family includes a wide variety of AAA domains including some that have lost essential nucleotide binding residues in the P-loop. Length = 145

>gnl|CDD|225447 COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

 Score = 53.4 bits (129), Expect = 3e-08
 Identities = 63/277 (22%), Positives = 120/277 (43%), Gaps = 65/277 (23%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
           +I V SGKGGVGK+TT  N+  ALA   + KV L+D D+   ++ ++M ++ +  +  D+
Sbjct: 4   IIVVTSGKGGVGKTTTTANIGTALAQLGK-KVVLIDFDIGLRNLDLIMGLENR--IVYDL 60

Query: 93  KMV-----PIENYGVK---CMSMGFLVPSS--------SPVVWRGPMVMSALRKMSREVD 136
             V      +    +K     ++ FL+P+S        +P   +   V++ L+ M     
Sbjct: 61  VDVIEGEATLNQALIKDKRLENL-FLLPASQTRDKDALTPEGVK--KVVNELKAM----- 112

Query: 137 WGNLDILVIDMPPGTGDAQLTTTQTLQLSGA---LIVSTPQDVALIDARKGITMFSKVQV 193
             + D ++ID P G     +       +  A   ++V+ P+  ++ D+ +          
Sbjct: 113 --DFDYIIIDSPAG-----IEQGFKNAVYFADEAIVVTNPEVSSVRDSDR---------- 155

Query: 194 PILGLVENMSCFIC-PHCSEPSFIFGKGGTHRTAA-EM----------GLKVIGEIPIEM 241
            I+GL+E+ S         +   +  +         EM           + +IG IP + 
Sbjct: 156 -IIGLLESKSRRAEIGEEPKEHLLLNRYRPEMVKRGEMLSVEDVLEILSIPLIGVIPEDQ 214

Query: 242 DIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQ 278
           D+ + S+ G PV++   +S   +AY     ++  RL 
Sbjct: 215 DVLRASNKGEPVIL-DDNSDAGKAY----RDIARRLL 246

Length = 272

>gnl|CDD|239385 cd03111, CpaE_like, This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

 Score = 50.0 bits (120), Expect = 5e-08
 Identities = 21/38 (55%), Positives = 25/38 (65%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          VIA    KGGVG +T A NLAVALA +   +V L+D D
Sbjct: 1  VIAFIGAKGGVGATTLAANLAVALAKEAGRRVLLVDLD 38

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome. Length = 106

>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

 Score = 48.6 bits (116), Expect = 1e-07
 Identities = 20/38 (52%), Positives = 26/38 (68%), Gaps = 1/38 (2%)

Query: 34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV 71
          + V +GKGGVGK+T A NLA ALA +   +V L+D  V
Sbjct: 1  VIVVTGKGGVGKTTLAANLAAALAKR-GKRVLLIDDYV 37

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Length = 99

>gnl|CDD|132063 TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-CTERM locus tyrosine autokinase

 Score = 50.8 bits (122), Expect = 1e-07
 Identities = 38/160 (23%), Positives = 72/160 (45%), Gaps = 16/160 (10%)

Query: 21  GSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMM 80
            +         ++I V S   G GKS TA+NLA++LA +    V L+DAD+  PS+   +
Sbjct: 25  NAFSANRKKNNNLIMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDADLRRPSLHRTL 84

Query: 81  KIDQKPEVTKDMKMVPIENYGVKCMSMGF----LVPSSSPVVWRGPMVMS-ALRKMSREV 135
            ++ +P ++ D  + P+ +     +        L+P+         ++ S  +R +  E+
Sbjct: 85  GLEAEPGLS-DCLLDPVLDLADVLVPTNIGRLSLLPAGRRHPNPTELLASQRMRSLLHEL 143

Query: 136 DWGNLD-ILVIDMPPGTGDAQLTTTQTLQLS----GALIV 170
                D I++ID PP      L  ++   L+      ++V
Sbjct: 144 ARRYPDRIIIIDTPP-----LLVFSEARALARLVGQIVLV 178

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins. Length = 207

>gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD

 Score = 48.9 bits (117), Expect = 1e-06
 Identities = 23/39 (58%), Positives = 28/39 (71%), Gaps = 1/39 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV 71
          VI + SGKGGVGK+TT  NL  ALA +   KV L+DAD+
Sbjct: 3  VIVITSGKGGVGKTTTTANLGTALA-RLGKKVVLIDADI 40

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model [Cellular processes, Cell division]. Length = 261

>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

 Score = 47.6 bits (114), Expect = 1e-06
 Identities = 44/182 (24%), Positives = 74/182 (40%), Gaps = 22/182 (12%)

Query: 38  SGKGGVGKSTTAVNLAVALASKCQLKV---------GLLDADVYGPSVPMMMKIDQKPEV 88
           +GKGGVGK+T A   AV LA +   KV          L D  +   S      I + PE+
Sbjct: 5   TGKGGVGKTTIAAATAVRLAEE-GKKVLLVSTDPAHNLSDKGLPNLSD---AFIVEDPEI 60

Query: 89  TKD---MKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVI 145
             +    ++             G L+   +     G   +++L  + RE   G  D++V 
Sbjct: 61  APNLYREEVDATRRVERAWGGEGGLMLELA-AALPGIEELASLLAVFREFSEGLYDVIVF 119

Query: 146 DMPPGTGDA-QLTTTQTLQ---LSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
           D  P TG   +L   + L     +   +V+ P+ + L +  + IT  +   +P+  +V N
Sbjct: 120 DTAP-TGHTLRLLVRELLTDPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVVVN 178

Query: 202 MS 203
             
Sbjct: 179 RV 180

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence. Length = 217

>gnl|CDD|214385 CHL00175, minD, septum-site determining protein; Validated

 Score = 47.5 bits (113), Expect = 3e-06
 Identities = 19/39 (48%), Positives = 29/39 (74%), Gaps = 1/39 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV 71
          +I + SGKGGVGK+TT  NL +++A +   +V L+DAD+
Sbjct: 17 IIVITSGKGGVGKTTTTANLGMSIA-RLGYRVALIDADI 54

Length = 281

>gnl|CDD|220125 pfam09140, MipZ, ATPase MipZ

 Score = 46.6 bits (111), Expect = 5e-06
 Identities = 20/38 (52%), Positives = 25/38 (65%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          VI V + KGG GKSTTAV++AVAL      +V  +D D
Sbjct: 2  VIVVGNEKGGSGKSTTAVHVAVALLYLGA-RVATIDLD 38

MipZ is an ATPase that forms a complex with the chromosome partitioning protein ParB near the chromosomal origin of replication. It is responsible for the temporal and spatial regulation of FtsZ ring formation. Length = 262

>gnl|CDD|223082 COG0003, ArsA, Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 43.9 bits (104), Expect = 5e-05
 Identities = 41/193 (21%), Positives = 66/193 (34%), Gaps = 40/193 (20%)

Query: 38  SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPM-------MMKIDQKP-EVT 89
           +GKGGVGK+T A   AV LA     KV L+  D      P         +++   P +V 
Sbjct: 8   TGKGGVGKTTIAAATAVKLAES-GKKVLLVSTD------PAHSLGDVFDLELGHDPRKVG 60

Query: 90  K-------DMKMVPIENYG---VKCMSMGFLVPSSSPV------VWRGPMVMSALRKMSR 133
                   D     +E Y       ++          +         G     AL K+  
Sbjct: 61  PNLDALELDP-EKALEEYWDEVKDYLARLLRTRGLGGIYADELATLPGIDEALALLKILE 119

Query: 134 EVDWGNLDILVIDMPPGTGDA----QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFS 189
               G  D++V+D  P TG       L       L        P+   ++ A K ++  +
Sbjct: 120 YYVSGEYDVIVVDTAP-TGHTLRLLSLPEVLGWYLEKLF---KPRRKRMVKALKSLSTAA 175

Query: 190 KVQVPILGLVENM 202
              +P   ++E +
Sbjct: 176 GSPLPDDAVLEAL 188

Length = 322

>gnl|CDD|222854 PHA02518, PHA02518, ParA-like protein; Provisional

 Score = 42.5 bits (100), Expect = 7e-05
 Identities = 21/43 (48%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPS 75
          +IAV + KGG GK+T A NLA  L +    KV L+D D  G S
Sbjct: 2  IIAVLNQKGGAGKTTVATNLASWLHADGH-KVLLVDLDPQGSS 43

Length = 211

>gnl|CDD|130080 TIGR01007, eps_fam, capsular exopolysaccharide family

 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 48/202 (23%), Positives = 83/202 (41%), Gaps = 31/202 (15%)

Query: 16  YYAAFGSK-DLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP 74
           YY A  +        +K V+ + S K G GKSTT+ N+AVA A     K  L+D D+   
Sbjct: 2   YYNAIRTNIQFSGAEIK-VLLITSVKPGEGKSTTSANIAVAFAQA-GYKTLLIDGDMRNS 59

Query: 75  SVPMMMK-----------IDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPM 123
            +    K           +    +++  +    IEN  V  ++ G + P+ + ++     
Sbjct: 60  VMSGTFKSQNKITGLTNFLSGTTDLSDAICDTNIENLFV--ITSGPVPPNPTELLQSSNF 117

Query: 124 --VMSALRKMSREVDWGNLDILVIDMPP-GT-GDAQLTTTQTLQLSGALIVSTPQDVALI 179
             ++  LRK          D ++ID PP GT  DA +          +++V+   ++   
Sbjct: 118 KTLIETLRKY--------FDYIIIDTPPIGTVTDAAIIAR---ACDASILVTDAGEIKKR 166

Query: 180 DARKGITMFSKVQVPILGLVEN 201
           D +K      +     LG+V N
Sbjct: 167 DVQKAKEQLEQTGSNFLGVVLN 188

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes [Transport and binding proteins, Carbohydrates, organic alcohols, and acids]. Length = 204

>gnl|CDD|132074 TIGR03029, EpsG, chain length determinant protein tyrosine kinase EpsG

 Score = 42.5 bits (100), Expect = 1e-04
 Identities = 48/186 (25%), Positives = 82/186 (44%), Gaps = 24/186 (12%)

Query: 28  DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPE 87
              +  +AV S K G G S  A NLA+   S+   K  L+DA++  P      K+ ++  
Sbjct: 100 SEGRKALAVVSAKSGEGCSYIAANLAIVF-SQLGEKTLLIDANLRDPVQHRNFKLSEQRG 158

Query: 88  VT---------KDMKMVP-IENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDW 137
           ++         + +  +P +EN  V  +  G + P+   ++ R P     L K+      
Sbjct: 159 LSDILAGRSDLEVITHIPALENLSV--LPAGAIPPNPQELLAR-PAFTDLLNKVM----- 210

Query: 138 GNLDILVIDMPPG--TGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPI 195
           G+ D++++D P    + DAQ+  T+     G LIVS   +  L +        S V V +
Sbjct: 211 GDYDVVIVDTPSAEHSSDAQIVATRA---RGTLIVSRVNETRLHELTSLKEHLSGVGVRV 267

Query: 196 LGLVEN 201
           +G V N
Sbjct: 268 VGAVLN 273

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF). Length = 274

>gnl|CDD|201032 pfam00142, Fer4_NifH, 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family

 Score = 42.0 bits (99), Expect = 2e-04
 Identities = 60/264 (22%), Positives = 107/264 (40%), Gaps = 51/264 (19%)

Query: 39  GKGGVGKSTTAVNLAVALASKCQLKVGLLDAD---------VYGPSVPMMMKIDQKPEVT 89
           GKGG+GKSTT  N + ALA   + KV ++  D         + G + P ++    +  + 
Sbjct: 7   GKGGIGKSTTTQNTSAALAEMGK-KVLIVGCDPKADSTRLILGGKAQPTIIDTAAEKGLV 65

Query: 90  KDMKM--VPIENY-GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVID 146
           +D+++  V  + Y G+KC+  G   P    V   G  V++A+  +     + +LD +  D
Sbjct: 66  EDVELEDVVKKGYGGIKCVESGGPEPG---VGCAGRGVITAIDLLEELGAYDDLDFVFYD 122

Query: 147 -----------MPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDAR---KGITMFSKVQ 192
                      MP   G AQ             IV++ + +AL  A    KGI  ++   
Sbjct: 123 VLGDVVCGGFAMPIREGKAQ----------EVYIVTSGEMMALYAANNICKGILKYANSG 172

Query: 193 -VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGV 251
            V + GL+          C+       +      A  +G ++I  +P +  ++K      
Sbjct: 173 GVRLGGLI----------CNSRKVDDERELIDAFAEALGTQMIHFVPRDNIVQKAELRKQ 222

Query: 252 PVVISAPDSTVSRAYGEVAVNVVN 275
            V+   P    +  Y E+A  ++ 
Sbjct: 223 TVIEYDPTCNQADEYRELARKIIE 246

Length = 272

>gnl|CDD|234363 TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 21/54 (38%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP 86
           V+AV  G+GG G ST A  LA+A A++  L+  L+DAD +G  + +++  +  P
Sbjct: 95  VVAVIGGRGGAGASTLAAALALA-AARHGLRTLLVDADPWGGGLDLLLGAEDVP 147

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 PMID: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. Length = 322

>gnl|CDD|237293 PRK13185, chlL, protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

 Score = 41.1 bits (97), Expect = 3e-04
 Identities = 16/27 (59%), Positives = 20/27 (74%), Gaps = 1/27 (3%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASK 59
          V+AV  GKGG+GKSTT+ NL+ A A  
Sbjct: 4  VLAV-YGKGGIGKSTTSSNLSAAFAKL 29

Length = 270

>gnl|CDD|238996 cd02040, NifH, NifH gene encodes component II (iron protein) of nitrogenase

 Score = 41.1 bits (97), Expect = 3e-04
 Identities = 69/268 (25%), Positives = 110/268 (41%), Gaps = 57/268 (21%)

Query: 39  GKGGVGKSTTAVNLAVALAS--KCQLKVG---------LLDADVYGPSVPMMMKIDQKPE 87
           GKGG+GKSTT  NL+ ALA   K  + VG         LL      P+V   ++  +K E
Sbjct: 8   GKGGIGKSTTTQNLSAALAEMGKKVMIVGCDPKADSTRLLLGGKAIPTVLDTLR--EKGE 65

Query: 88  VTKDMKMVPIENY-GVKCMSMGFLVPSSSP---VVWRGPMVMSALRKMSR-EVDWGNLDI 142
           V  +++ V  E + G+KC      V S  P   V   G  V++A+  +        +LD 
Sbjct: 66  VELELEDVIFEGFGGIKC------VESGGPEPGVGCAGRGVITAINLLEELGAYEDDLDF 119

Query: 143 LVID-----------MPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDAR---KGITMF 188
           ++ D           MP   G AQ             IV++ + +AL  A    KGI  +
Sbjct: 120 VIYDVLGDVVCGGFAMPIREGKAQEI----------YIVTSGEMMALYAANNICKGILKY 169

Query: 189 SKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSD 248
           +K     LG +      I   C+  +           A  +G ++I  +P +  +++   
Sbjct: 170 AKSGGVRLGGL------I---CNSRNTDREDELIDAFAKRLGTQMIHFVPRDNVVQRAEL 220

Query: 249 DGVPVVISAPDSTVSRAYGEVAVNVVNR 276
            G  V+   P+S  +  Y E+A  +V  
Sbjct: 221 RGKTVIEYDPESKQADEYRELARKIVEN 248

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia. Length = 270

>gnl|CDD|183903 PRK13230, PRK13230, nitrogenase reductase-like protein; Reviewed

 Score = 40.9 bits (96), Expect = 4e-04
 Identities = 65/254 (25%), Positives = 108/254 (42%), Gaps = 41/254 (16%)

Query: 39  GKGGVGKSTTAVNLAVALASKCQLKVGLLDAD--------VYGPSVPMMMKIDQKPEVTK 90
           GKGG+GKSTT  N+A AL ++   KV ++  D        + G  +P ++ + ++    K
Sbjct: 8   GKGGIGKSTTVCNIAAAL-AESGKKVLVVGCDPKADCTRNLVGEKIPTVLDVLRE----K 62

Query: 91  DMKMVPIENY------GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILV 144
            +  + +E+       G+ C+  G   P       RG +    L K     +    D+++
Sbjct: 63  GIDNLGLEDIIYEGFNGIYCVESGGPEPGYG-CAGRGVITAIDLLKKLGVFEELGPDVVI 121

Query: 145 IDMPPGTGDAQLTT-TQTLQLSGA---LIVSTPQDVALIDAR---KGITMF-SKVQVPIL 196
            D+    GD         LQ   A    IV+T   +A+  A    KGI  F  + +  + 
Sbjct: 122 YDI---LGDVVCGGFAMPLQKGLADDVYIVTTCDPMAIYAANNICKGIKRFAKRGKSALG 178

Query: 197 GLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVIS 256
           G++ N    I      P  +         A ++G  VIG+IP+   I +    G  V+  
Sbjct: 179 GIIYNGRSVI----DAPDIV------EEFAKKIGTNVIGKIPMSNIITEAEIYGKTVIEY 228

Query: 257 APDSTVSRAYGEVA 270
           APDS +S  + E+A
Sbjct: 229 APDSEISNIFRELA 242

Length = 279

>gnl|CDD|238991 cd02034, CooC, The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

 Score = 38.4 bits (90), Expect = 6e-04
 Identities = 25/74 (33%), Positives = 34/74 (45%), Gaps = 9/74 (12%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPS--VPMMMKIDQKPEVTK 90
            IA+ +GKGGVGK+T A  LA  LA K +  V  +DAD   P      +    +  E+  
Sbjct: 1   KIAI-TGKGGVGKTTIAALLARYLAEKGK-PVLAIDAD---PDDLPERLSV--EVGEIKL 53

Query: 91  DMKMVPIENYGVKC 104
            + M      G  C
Sbjct: 54  LLVMGMGRPGGEGC 67

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function. Length = 116

>gnl|CDD|239034 cd02117, NifH_like, This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

 Score = 39.9 bits (94), Expect = 7e-04
 Identities = 16/25 (64%), Positives = 20/25 (80%), Gaps = 1/25 (4%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALA 57
           IA+  GKGG+GKSTT+ NL+ ALA
Sbjct: 2  QIAI-YGKGGIGKSTTSQNLSAALA 25

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate. Length = 212

>gnl|CDD|238989 cd02032, Bchl_like, This family of proteins contains bchL and chlL

 Score = 40.1 bits (94), Expect = 8e-04
 Identities = 18/27 (66%), Positives = 23/27 (85%), Gaps = 1/27 (3%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASK 59
          V+AV  GKGG+GKSTT+ NL+VALA +
Sbjct: 2  VLAV-YGKGGIGKSTTSSNLSVALAKR 27

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen. Length = 267

>gnl|CDD|183904 PRK13231, PRK13231, nitrogenase reductase-like protein; Reviewed

 Score = 39.8 bits (93), Expect = 8e-04
 Identities = 62/260 (23%), Positives = 117/260 (45%), Gaps = 51/260 (19%)

Query: 39  GKGGVGKSTTAVNLAVALASKCQLKVGLLD--AD----VYG---PSVPMMMKIDQKPEVT 89
           GKGG+GKSTT  N+A A ++  ++ V   D  AD    + G   P+V   +K ++KPE+ 
Sbjct: 9   GKGGIGKSTTVSNMAAAYSNDHRVLVIGCDPKADTTRTLCGKRIPTVLDTLKDNRKPELE 68

Query: 90  KDMKMVPIENYG-VKCMSMGFLVPSSSPVVWRGPMV-MSALRKMSREVDWGNLDILVIDM 147
                +  E +  + C+  G   P       RG +V M+ L  +   V   ++D+++ D+
Sbjct: 69  D----IIHEGFNGILCVESGGPEPGVG-CAGRGVIVAMNLLENLG--VFDEDIDVVIYDV 121

Query: 148 PPGTGDAQLTTTQTLQLSGALIVSTPQDVA----LIDARKGITMFSKVQVP--ILGLVEN 201
               GD          + G   V   +D A    ++ + + +++++   +   I  L   
Sbjct: 122 ---LGDV---------VCGGFSVPLREDYADEVYIVTSGEYMSLYAANNIARGIKKLKGK 169

Query: 202 MSCFICPHCSEPSFIFGKGGTHRT------AAEMGLKVIGEIPIEMDIRKGSDDGVPVVI 255
           +   IC +C        +G  +        A+ +G ++IG IP    +++   D   VV 
Sbjct: 170 LGGIIC-NC--------RGIDNEVEIVSEFASRIGSRIIGVIPRSNLVQESELDAKTVVE 220

Query: 256 SAPDSTVSRAYGEVAVNVVN 275
           + P+S  +  Y ++A N++N
Sbjct: 221 TFPESEQASVYRKLANNIMN 240

Length = 264

>gnl|CDD|234188 TIGR03371, cellulose_yhjQ, cellulose synthase operon protein YhjQ

 Score = 38.1 bits (89), Expect = 0.003
 Identities = 15/26 (57%), Positives = 18/26 (69%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALAS 58
          VIA+ S +GGVGK+T   NLA AL  
Sbjct: 3  VIAIVSVRGGVGKTTLTANLASALKL 28

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PMID:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined [Cell envelope, Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides]. Length = 246

>gnl|CDD|224267 COG1348, NifH, Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 15/20 (75%), Positives = 17/20 (85%)

Query: 39 GKGGVGKSTTAVNLAVALAS 58
          GKGG+GKSTT+ NLA ALA 
Sbjct: 8  GKGGIGKSTTSQNLAAALAE 27

Length = 278

>gnl|CDD|130348 TIGR01281, DPOR_bchL, light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

 Score = 37.9 bits (88), Expect = 0.004
 Identities = 16/27 (59%), Positives = 21/27 (77%), Gaps = 1/27 (3%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASK 59
          ++AV  GKGG+GKSTT+ NL+VA A  
Sbjct: 2  ILAV-YGKGGIGKSTTSSNLSVAFAKL 27

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit [Biosynthesis of cofactors, prosthetic groups, and carriers, Chlorophyll and bacteriochlorphyll]. Length = 268

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	295
KOG3022	300	consensus Predicted ATPase, nucleotide-binding [Ce	100.0
PRK11670	369	antiporter inner membrane protein; Provisional	100.0
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	100.0
PRK13232	273	nifH nitrogenase reductase; Reviewed	100.0
CHL00175	281	minD septum-site determining protein; Validated	100.0
PRK13233	275	nifH nitrogenase reductase; Reviewed	100.0
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	100.0
PRK13235	274	nifH nitrogenase reductase; Reviewed	100.0
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	100.0
PRK10818	270	cell division inhibitor MinD; Provisional	100.0
cd02040	270	NifH NifH gene encodes component II (iron protein)	100.0
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	100.0
CHL00072	290	chlL photochlorophyllide reductase subunit L	100.0
COG2894	272	MinD Septum formation inhibitor-activating ATPase	100.0
PRK13236	296	nitrogenase reductase; Reviewed	100.0
TIGR01287	275	nifH nitrogenase iron protein. This model describe	100.0
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	100.0
PRK13869	405	plasmid-partitioning protein RepA; Provisional	100.0
PHA02518	211	ParA-like protein; Provisional	100.0
PRK10037	250	cell division protein; Provisional	100.0
COG0455	262	flhG Antiactivator of flagellar biosynthesis FleN,	100.0
PRK13231	264	nitrogenase reductase-like protein; Reviewed	100.0
PRK13234	295	nifH nitrogenase reductase; Reviewed	100.0
PRK13230	279	nitrogenase reductase-like protein; Reviewed	100.0
cd02032	267	Bchl_like This family of proteins contains bchL an	100.0
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	100.0
PHA02519	387	plasmid partition protein SopA; Reviewed	99.98
COG1192	259	Soj ATPases involved in chromosome partitioning [C	99.98
PRK13705	388	plasmid-partitioning protein SopA; Provisional	99.98
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	99.97
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	99.97
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	99.97
cd02036	179	MinD Bacterial cell division requires the formatio	99.97
cd02117	212	NifH_like This family contains the NifH (iron prot	99.97
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	99.97
COG0489	265	Mrp ATPases involved in chromosome partitioning [C	99.96
cd02033	329	BchX Chlorophyllide reductase converts chlorophyll	99.96
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	99.96
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	99.96
COG1149	284	MinD superfamily P-loop ATPase containing an inser	99.96
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	99.95
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	99.95
PRK13849	231	putative crown gall tumor protein VirC1; Provision	99.95
cd03110	179	Fer4_NifH_child This protein family's function is	99.95
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	99.93
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	99.93
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	99.93
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	99.92
PRK11519	719	tyrosine kinase; Provisional	99.92
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	99.92
COG1348	278	NifH Nitrogenase subunit NifH (ATPase) [Inorganic	99.92
cd03111	106	CpaE_like This protein family consists of proteins	99.89
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	99.89
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	99.88
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	99.85
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	99.85
PF09140	261	MipZ: ATPase MipZ; InterPro: IPR015223 Cell divisi	99.82
cd02035	217	ArsA ArsA ATPase functionas as an efflux pump loca	99.82
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	99.8
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	99.67
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	99.59
cd03114	148	ArgK-like The function of this protein family is u	99.57
TIGR00064	272	ftsY signal recognition particle-docking protein F	99.54
cd02034	116	CooC The accessory protein CooC, which contains a	99.52
PRK10867	433	signal recognition particle protein; Provisional	99.5
PRK00090	222	bioD dithiobiotin synthetase; Reviewed	99.49
PRK13886	241	conjugal transfer protein TraL; Provisional	99.48
TIGR00959	428	ffh signal recognition particle protein. This mode	99.47
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	99.46
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	99.43
PRK01077	451	cobyrinic acid a,c-diamide synthase; Validated	99.42
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	99.41
cd03115	173	SRP The signal recognition particle (SRP) mediates	99.41
PRK13768	253	GTPase; Provisional	99.41
PRK00771	437	signal recognition particle protein Srp54; Provisi	99.4
PRK10416	318	signal recognition particle-docking protein FtsY;	99.38
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	99.38
KOG2825	323	consensus Putative arsenite-translocating ATPase [	99.37
PRK12374	231	putative dithiobiotin synthetase; Provisional	99.36
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	99.29
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	99.29
PF13500	199	AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R	99.28
TIGR00313	475	cobQ cobyric acid synthase CobQ.	99.26
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	99.24
COG0132	223	BioD Dethiobiotin synthetase [Coenzyme metabolism]	99.22
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	99.19
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	99.19
cd03109	134	DTBS Dethiobiotin synthetase (DTBS) is the penulti	99.19
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	99.17
PRK05632	684	phosphate acetyltransferase; Reviewed	99.17
PF10609	81	ParA: ParA/MinD ATPase like; InterPro: IPR019591 T	99.17
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	99.16
PRK00784	488	cobyric acid synthase; Provisional	99.14
TIGR00379	449	cobB cobyrinic acid a,c-diamide synthase. This mod	99.11
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	99.09
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.07
PRK14974	336	cell division protein FtsY; Provisional	99.07
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.06
COG1797	451	CobB Cobyrinic acid a,c-diamide synthase [Coenzyme	99.06
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.03
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	99.0
TIGR00345	284	arsA arsenite-activated ATPase (arsA). The N-termi	98.99
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.98
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.89
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.88
PRK06278	476	cobyrinic acid a,c-diamide synthase; Validated	98.85
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	98.82
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.74
PRK13896	433	cobyrinic acid a,c-diamide synthase; Provisional	98.64
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.64
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.62
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	98.57
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	98.53
KOG0780	483	consensus Signal recognition particle, subunit Srp	98.43
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.42
KOG0781	587	consensus Signal recognition particle receptor, al	98.4
COG1492	486	CobQ Cobyric acid synthase [Coenzyme metabolism]	98.37
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.26
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.21
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.14
cd00477	524	FTHFS Formyltetrahydrofolate synthetase (FTHFS) ca	98.09
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.06
COG1341	398	Predicted GTPase or GTP-binding protein [General f	97.98
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.97
PRK13506	578	formate--tetrahydrofolate ligase; Provisional	97.97
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.88
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.86
KOG1533	290	consensus Predicted GTPase [General function predi	97.85
PRK12740	668	elongation factor G; Reviewed	97.83
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.81
PLN02974	817	adenosylmethionine-8-amino-7-oxononanoate transami	97.8
COG0857	354	Pta BioD-like N-terminal domain of phosphotransace	97.8
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	97.73
cd00881	189	GTP_translation_factor GTP translation factor fami	97.72
PRK08233	182	hypothetical protein; Provisional	97.72
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.71
COG1159	298	Era GTPase [General function prediction only]	97.69
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.69
COG0050	394	TufB GTPases - translation elongation factors [Tra	97.69
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.65
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	97.61
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	97.6
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.54
cd03112	158	CobW_like The function of this protein family is u	97.48
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	97.47
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	97.44
PRK00089	292	era GTPase Era; Reviewed	97.44
PTZ00141	446	elongation factor 1- alpha; Provisional	97.41
PRK00007	693	elongation factor G; Reviewed	97.39
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.37
cd03116	159	MobB Molybdenum is an essential trace element in t	97.37
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	97.36
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.35
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.35
COG1160	444	Predicted GTPases [General function prediction onl	97.33
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	97.33
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.32
PRK00093	435	GTP-binding protein Der; Reviewed	97.31
PRK12739	691	elongation factor G; Reviewed	97.3
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	97.28
PRK10218	607	GTP-binding protein; Provisional	97.27
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	97.27
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	97.26
PLN03127	447	Elongation factor Tu; Provisional	97.26
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.25
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	97.23
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.22
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.2
PRK00889	175	adenylylsulfate kinase; Provisional	97.19
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	97.19
PRK00049	396	elongation factor Tu; Reviewed	97.17
PLN03126	478	Elongation factor Tu; Provisional	97.12
PRK04296	190	thymidine kinase; Provisional	97.1
PRK07667	193	uridine kinase; Provisional	97.1
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.09
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	97.08
smart00382	148	AAA ATPases associated with a variety of cellular	97.07
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.06
PRK14495	452	putative molybdopterin-guanine dinucleotide biosyn	97.05
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	97.04
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.04
KOG0635	207	consensus Adenosine 5'-phosphosulfate kinase [Inor	97.04
PLN00043	447	elongation factor 1-alpha; Provisional	97.03
PRK05973	237	replicative DNA helicase; Provisional	97.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.99
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	96.99
PRK06696	223	uridine kinase; Validated	96.98
PTZ00416	836	elongation factor 2; Provisional	96.96
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.95
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	96.94
COG2403	449	Predicted GTPase [General function prediction only	96.92
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.91
PRK07952	244	DNA replication protein DnaC; Validated	96.91
PRK06067	234	flagellar accessory protein FlaH; Validated	96.88
PF02606	326	LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPr	96.88
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	96.88
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.87
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.87
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	96.85
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	96.85
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	96.85
PRK12317	425	elongation factor 1-alpha; Reviewed	96.84
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.81
PRK03846	198	adenylylsulfate kinase; Provisional	96.8
CHL00071	409	tufA elongation factor Tu	96.78
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	96.78
PRK12736	394	elongation factor Tu; Reviewed	96.78
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	96.77
PRK15453	290	phosphoribulokinase; Provisional	96.74
TIGR00485	394	EF-Tu translation elongation factor TU. This align	96.74
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.73
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	96.73
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	96.72
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.72
PRK07560	731	elongation factor EF-2; Reviewed	96.71
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.7
PHA02542	473	41 41 helicase; Provisional	96.68
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.67
PRK15494	339	era GTPase Era; Provisional	96.67
PRK05306	787	infB translation initiation factor IF-2; Validated	96.66
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.65
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.65
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	96.63
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.62
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.62
PRK05433	600	GTP-binding protein LepA; Provisional	96.61
PRK12735	396	elongation factor Tu; Reviewed	96.61
KOG2749	415	consensus mRNA cleavage and polyadenylation factor	96.61
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	96.61
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	96.61
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	96.6
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	96.59
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.57
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	96.55
PF13479	213	AAA_24: AAA domain	96.54
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	96.54
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	96.53
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.52
PLN00116	843	translation elongation factor EF-2 subunit; Provis	96.52
PRK14491	597	putative bifunctional molybdopterin-guanine dinucl	96.51
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.5
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.48
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	96.47
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	96.47
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	96.46
TIGR00682	311	lpxK tetraacyldisaccharide 4'-kinase. Also called	96.44
PF13245	76	AAA_19: Part of AAA domain	96.44
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	96.43
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	96.42
CHL00189	742	infB translation initiation factor 2; Provisional	96.41
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	96.41
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	96.39
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.39
PRK00652	325	lpxK tetraacyldisaccharide 4'-kinase; Reviewed	96.38
PLN00023	334	GTP-binding protein; Provisional	96.38
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	96.37
PF07755	301	DUF1611: Protein of unknown function (DUF1611); In	96.36
PRK03003	472	GTP-binding protein Der; Reviewed	96.36
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	96.35
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	96.33
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.33
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.31
PRK04328	249	hypothetical protein; Provisional	96.29
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.28
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	96.25
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	96.24
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	96.21
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	96.2
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.2
COG3367	339	Uncharacterized conserved protein [Function unknow	96.19
PRK05480	209	uridine/cytidine kinase; Provisional	96.18
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.16
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.12
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	96.12
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	96.11
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.11
PRK00093	435	GTP-binding protein Der; Reviewed	96.1
PLN03118	211	Rab family protein; Provisional	96.09
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	96.09
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.07
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	96.06
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.05
PRK05541	176	adenylylsulfate kinase; Provisional	96.05
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	96.05
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.04
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.03
PHA00729	226	NTP-binding motif containing protein	96.02
KOG0460	449	consensus Mitochondrial translation elongation fac	96.01
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.98
cd03113	255	CTGs CTP synthetase (CTPs) is a two-domain protein	95.97
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.96
PRK06526	254	transposase; Provisional	95.95
PTZ00133	182	ADP-ribosylation factor; Provisional	95.95
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	95.95
PRK05439	311	pantothenate kinase; Provisional	95.94
PLN03108	210	Rab family protein; Provisional	95.91
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	95.88
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.88
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	95.88
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.86
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	95.84
PRK07414	178	cob(I)yrinic acid a,c-diamide adenosyltransferase;	95.84
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	95.8
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	95.79
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	95.79
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.78
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.72
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	95.72
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	95.68
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	95.68
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	95.67
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.66
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.66
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.64
PRK13351	687	elongation factor G; Reviewed	95.61
KOG0461	522	consensus Selenocysteine-specific elongation facto	95.6
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	95.58
PRK06762	166	hypothetical protein; Provisional	95.55
PRK11537	318	putative GTP-binding protein YjiA; Provisional	95.53
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.53
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	95.52
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.5
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.49
PRK09354	349	recA recombinase A; Provisional	95.47
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	95.46
PRK05595	444	replicative DNA helicase; Provisional	95.46
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.43
PRK03003	472	GTP-binding protein Der; Reviewed	95.41
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	95.41
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.4
PRK12377	248	putative replication protein; Provisional	95.39
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	95.38
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.38
PRK11823	446	DNA repair protein RadA; Provisional	95.37
PRK08760	476	replicative DNA helicase; Provisional	95.37
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	95.37
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.36
PRK09183	259	transposase/IS protein; Provisional	95.36
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.31
PRK08506	472	replicative DNA helicase; Provisional	95.31
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.31
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	95.3
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	95.29
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	95.28
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	95.14
PRK05642	234	DNA replication initiation factor; Validated	95.14
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.13
COG4240	300	Predicted kinase [General function prediction only	95.12
TIGR00665	434	DnaB replicative DNA helicase. This model describe	95.12
PRK06749	428	replicative DNA helicase; Provisional	95.1
PRK08727	233	hypothetical protein; Validated	95.06
TIGR00101	199	ureG urease accessory protein UreG. This model rep	95.06
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	95.05
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	95.05
PRK06835	329	DNA replication protein DnaC; Validated	95.04
PRK08006	471	replicative DNA helicase; Provisional	95.02
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.01
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	95.0
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	95.0
PRK06904	472	replicative DNA helicase; Validated	94.97
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	94.95
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	94.94
PRK08903	227	DnaA regulatory inactivator Hda; Validated	94.94
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	94.93
PRK01906	338	tetraacyldisaccharide 4'-kinase; Provisional	94.91
PRK05748	448	replicative DNA helicase; Provisional	94.89
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	94.89
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	94.89
PRK08840	464	replicative DNA helicase; Provisional	94.88
PRK08939	306	primosomal protein DnaI; Reviewed	94.88
COG1217	603	TypA Predicted membrane GTPase involved in stress	94.87
PRK08118	167	topology modulation protein; Reviewed	94.85
PTZ00035	337	Rad51 protein; Provisional	94.82
COG2759	554	MIS1 Formyltetrahydrofolate synthetase [Nucleotide	94.81
PF02572	172	CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase	94.78
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	94.77
PRK08181	269	transposase; Validated	94.77
PRK06893	229	DNA replication initiation factor; Validated	94.77
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	94.72
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	94.71
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	94.7
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.68
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	94.66
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	94.65
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.61
PRK06321	472	replicative DNA helicase; Provisional	94.59
PF01935	229	DUF87: Domain of unknown function DUF87; InterPro:	94.56
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.55
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	94.51
PLN02924	220	thymidylate kinase	94.49
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	94.48
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.46
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.46
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	94.45
PRK08116	268	hypothetical protein; Validated	94.45
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	94.42
PRK08084	235	DNA replication initiation factor; Provisional	94.42
PLN02759	637	Formate--tetrahydrofolate ligase	94.37
PRK06851	367	hypothetical protein; Provisional	94.36
PF05729	166	NACHT: NACHT domain	94.35
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	94.34
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	94.33
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	94.33
PRK12298	390	obgE GTPase CgtA; Reviewed	94.32
PRK05636	505	replicative DNA helicase; Provisional	94.31
PRK09866	741	hypothetical protein; Provisional	94.29
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	94.26
COG1663	336	LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell env	94.23
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.23
PLN03046	460	D-glycerate 3-kinase; Provisional	94.23
TIGR02236	310	recomb_radA DNA repair and recombination protein R	94.23
PF12846	304	AAA_10: AAA-like domain	94.22
COG2109	198	BtuR ATP:corrinoid adenosyltransferase [Coenzyme m	94.19
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.19
PRK09165	497	replicative DNA helicase; Provisional	94.18
PRK06217	183	hypothetical protein; Validated	94.17
KOG1805	1100	consensus DNA replication helicase [Replication, r	94.16
KOG3220	225	consensus Similar to bacterial dephospho-CoA kinas	94.15
PRK13507	587	formate--tetrahydrofolate ligase; Provisional	94.12
PRK06921	266	hypothetical protein; Provisional	94.12
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	94.1
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.09
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	94.09
PRK00131	175	aroK shikimate kinase; Reviewed	94.03
PRK11058	426	GTPase HflX; Provisional	94.02
PF01268	557	FTHFS: Formate--tetrahydrofolate ligase; InterPro:	93.95
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	93.94
PLN02796	347	D-glycerate 3-kinase	93.93
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	93.88
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	93.83
PRK07004	460	replicative DNA helicase; Provisional	93.83
PRK06761	282	hypothetical protein; Provisional	93.81
PRK04301	317	radA DNA repair and recombination protein RadA; Va	93.77
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	93.77
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	93.74
PLN03210	1153	Resistant to P. syringae 6; Provisional	93.72
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	93.68
COG0523	323	Putative GTPases (G3E family) [General function pr	93.67
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	93.64
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	93.59
TIGR00235	207	udk uridine kinase. Model contains a number of lon	93.59
COG2229	187	Predicted GTPase [General function prediction only	93.57
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	93.56
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	93.55
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	93.53
KOG0462	650	consensus Elongation factor-type GTP-binding prote	93.51
PLN02200	234	adenylate kinase family protein	93.51
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	93.47
KOG3062	281	consensus RNA polymerase II elongator associated p	93.44
PTZ00301	210	uridine kinase; Provisional	93.43
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	93.42
PF13173	128	AAA_14: AAA domain	93.39
PRK03731	171	aroL shikimate kinase II; Reviewed	93.3
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	93.27
PRK00698	205	tmk thymidylate kinase; Validated	93.24
PLN02348	395	phosphoribulokinase	93.21
PTZ00386	625	formyl tetrahydrofolate synthetase; Provisional	93.17
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	93.12
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	93.1
COG1100	219	GTPase SAR1 and related small G proteins [General	93.07
PRK09302	509	circadian clock protein KaiC; Reviewed	93.06
PRK09302	509	circadian clock protein KaiC; Reviewed	93.03
PRK07933	213	thymidylate kinase; Validated	93.01
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	92.96
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	92.91
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	92.91
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	92.9
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	92.86
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	92.83
PRK13973	213	thymidylate kinase; Provisional	92.82
PTZ00369	189	Ras-like protein; Provisional	92.82
PRK06547	172	hypothetical protein; Provisional	92.78
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	92.78
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	92.77
PRK06851	367	hypothetical protein; Provisional	92.74
PRK07261	171	topology modulation protein; Provisional	92.74
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	92.67
PRK12339	197	2-phosphoglycerate kinase; Provisional	92.67
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	92.66
PRK12338	319	hypothetical protein; Provisional	92.56
PRK04040	188	adenylate kinase; Provisional	92.53
TIGR03172	232	probable selenium-dependent hydroxylase accessory	92.5
COG1072	283	CoaA Panthothenate kinase [Coenzyme metabolism]	92.48
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	92.42
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	92.32
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	92.3
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	92.24
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	92.19
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	92.17
TIGR00376	637	DNA helicase, putative. The gene product may repre	92.13
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	92.12
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	92.11
PRK13947	171	shikimate kinase; Provisional	92.03
PRK07773	886	replicative DNA helicase; Validated	92.02
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	92.0
PRK14731	208	coaE dephospho-CoA kinase; Provisional	92.0
PLN02165	334	adenylate isopentenyltransferase	91.96
PF01202	158	SKI: Shikimate kinase; InterPro: IPR000623 Shikima	91.94
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	91.92
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	91.82

>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]

Probab=100.00  E-value=3.8e-41  Score=274.19  Aligned_cols=253  Identities=50%  Similarity=0.839  Sum_probs=231.3

Q ss_pred             ccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccc-cccCCcee
Q 022525           26 KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVP-IENYGVKC  104 (295)
Q Consensus        26 ~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~  104 (295)
                      ++.+...+|+|.|+||||||||+|+|||++||. .|++|.++|.|..+|+++.++|.+.+.-........| ....++.+
T Consensus        42 ~l~~vk~iI~VlSGKGGVGKSTvt~nla~~La~-~g~~vglLD~Dl~GPSiP~m~g~e~~~~~~~~~g~~Pv~~~~~l~~  120 (300)
T KOG3022|consen   42 NLSGVKHIILVLSGKGGVGKSTVTVNLALALAS-EGKKVGLLDADLCGPSIPRMMGLEGEVVHQSDNGWIPVVVNKNLKL  120 (300)
T ss_pred             cccccceEEEEEeCCCCCchhHHHHHHHHHHhc-CCCcEEEEeecccCCCchhhcCCCCceeeecCCCceeeeecCCeEE
Confidence            455567999999999999999999999999999 9999999999999999999999998875555666666 67889999


Q ss_pred             eccccccCC-CCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhcc-CceEEEeeCCCcchHHHHH
Q 022525          105 MSMGFLVPS-SSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQ-LSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       105 ~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~-ad~viiv~~~~~~s~~~~~  182 (295)
                      ++.+++... +....|++......++++++...|.+.||+|||||||.++..+++..-.. +|..|||++|...++.++.
T Consensus       121 mS~gfLl~~~~~~vIwRGpkk~~~I~qflk~vdwg~lDyLviDtPPGtsDehls~~~~~~~~~gAviVTTPQ~vAl~Dv~  200 (300)
T KOG3022|consen  121 MSMGFLLKPRDDSVIWRGPKKNSMIKQFLKDVDWGELDYLVIDTPPGTSDEHLSLVQFLRESDGAVIVTTPQEVALQDVR  200 (300)
T ss_pred             EEeeeecCCCCccceeechHHHHHHHHHHhcCCCCCcCEEEEeCCCCCChhhhheeecccccCceEEEeCchhhhhHHHH
Confidence            999998877 67888999999999999999999999999999999999976665544333 3779999999999999999


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChH
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTV  262 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~  262 (295)
                      +.++++++.+++++|+|-||....++.+++..+.|...-.+++++.+|+++++.||-++.+.++.+.|.|+++.+|++++
T Consensus       201 K~i~fc~K~~I~ilGvVENMs~f~Cp~C~~~~~iF~~gGg~~l~~~~glp~Lg~iPld~~i~~~~d~G~~~v~~~p~s~~  280 (300)
T KOG3022|consen  201 KEIDFCRKAGIPILGVVENMSGFVCPKCGHSTNIFGSGGGERLAEELGLPLLGSLPLDPLIAESSDSGVPFVEEYPDSPA  280 (300)
T ss_pred             hhhhhhhhcCCceEEEEeccccccCCCCCCcceeccCccHHHHHHHcCCCeEeecCCCHHHHHhccCCCeeEecCCCchH
Confidence            99999999999999999999999999999999999988889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 022525          263 SRAYGEVAVNVVNRLQE  279 (295)
Q Consensus       263 ~~~~~~l~~~l~~~~~~  279 (295)
                      +..|++++.+|.+.+..
T Consensus       281 ~~af~~i~~~i~~~~~~  297 (300)
T KOG3022|consen  281 SEAFEDIAEKLVEQLSS  297 (300)
T ss_pred             HHHHHHHHHHHHHhhcc
Confidence            99999999999987754

>PRK11670 antiporter inner membrane protein; Provisional

Probab=100.00  E-value=3.7e-40  Score=291.34  Aligned_cols=253  Identities=48%  Similarity=0.836  Sum_probs=199.6

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcc-ccccCcccccccCCceee
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPE-VTKDMKMVPIENYGVKCM  105 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~-~~~~~~~~~~~~~~~~~~  105 (295)
                      .+.+.++|+|+|+||||||||+|+|||.+||+ .|+||++||+|+|+++++.+||..+... ..+...+.|....++...
T Consensus       103 ~~~~~~vIaV~S~KGGVGKTT~avNLA~aLA~-~G~rVlLID~D~qgps~~~~lg~~~~~~~~~~~~~i~p~~~~g~~~~  181 (369)
T PRK11670        103 VNGVKNIIAVSSGKGGVGKSSTAVNLALALAA-EGAKVGILDADIYGPSIPTMLGAEDQRPTSPDGTHMAPIMAHGLATN  181 (369)
T ss_pred             CCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHH-CCCcEEEEeCCCCCCCcchhcCCcccCCcccCCceeeeeeccCcccc
Confidence            55668999999999999999999999999999 9999999999999999988998754322 112222333222223222


Q ss_pred             ccccccCCCCCCccCCchHHHHHHHHHH-hccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHH
Q 022525          106 SMGFLVPSSSPVVWRGPMVMSALRKMSR-EVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKG  184 (295)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~  184 (295)
                      +.+.+........+++......+.+++. .+. +.||||||||||++++..++...+..+|.+|+|+.|+..++.++.+.
T Consensus       182 ~~~~l~~~~~~~i~~g~~~~~~l~~~l~~~~~-~~yDyvIID~PPg~gd~~l~~~~l~aad~viiV~tp~~~s~~da~~~  260 (369)
T PRK11670        182 SIGYLVTDDNAMVWRGPMASKALMQMLQETLW-PDLDYLVLDMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKG  260 (369)
T ss_pred             cHHHhcCcCcceeecCcchHHHHHHHHHHHhh-ccCCEEEEeCCCCCchHHHHHhhhccCCeEEEEecCchhHHHHHHHH
Confidence            2333222222233344445566777664 444 88999999999999865566667777999999999999999999999


Q ss_pred             HHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChHHH
Q 022525          185 ITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSR  264 (295)
Q Consensus       185 ~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~  264 (295)
                      ++.+.+.+.+++|+|+||+...++.+......+.+...+++.+.++.++++.||++..+.++...|+|+..+.|++++++
T Consensus       261 i~~~~~~~~~ilGiV~Nm~~~~~~~~~~~~~if~~~~~~~lae~~~~~ll~~IP~~~~I~ea~~~G~Pv~~~~p~s~~a~  340 (369)
T PRK11670        261 IVMFEKVEVPVLGIVENMSMHICSNCGHHEPIFGTGGAEKLAEKYHTQLLGQMPLHISLREDLDRGTPTVVSRPESEFTA  340 (369)
T ss_pred             HHHHhccCCCeEEEEEcCCccccCCccchhhhcccchHHHHHHHcCCcEEEEeCCChHHHHHHHCCCcEEEeCCCCHHHH
Confidence            99999999999999999998766655444444555668899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 022525          265 AYGEVAVNVVNRLQELA  281 (295)
Q Consensus       265 ~~~~l~~~l~~~~~~~~  281 (295)
                      +|.++++++..++....
T Consensus       341 ~y~~LA~el~~~~~~~~  357 (369)
T PRK11670        341 IYRQLADRVAAQLYWQG  357 (369)
T ss_pred             HHHHHHHHHHHHHhhhc
Confidence            99999999999886443

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=100.00  E-value=2.9e-36  Score=256.04  Aligned_cols=228  Identities=28%  Similarity=0.384  Sum_probs=178.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC-ccccccC-------cccccccCCce
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK-PEVTKDM-------KMVPIENYGVK  103 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~-~~~~~~~-------~~~~~~~~~~~  103 (295)
                      ++|+|.|+||||||||+|+|||++||+ +|++|++||+|+|+++++.++|.++. .++.+..       ........+++
T Consensus         1 ~ii~v~~~KGGvGKTt~a~~LA~~la~-~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   79 (251)
T TIGR01969         1 RIITIASGKGGTGKTTITANLGVALAK-LGKKVLALDADITMANLELILGMEDKPVTLHDVLAGEADIKDAIYEGPFGVK   79 (251)
T ss_pred             CEEEEEcCCCCCcHHHHHHHHHHHHHH-CCCeEEEEeCCCCCccceeEeCCCCCCCCHHHHhcCCCCHHHheEeCCCCEE
Confidence            589999999999999999999999999 99999999999998899999988753 2222211       01111223566


Q ss_pred             eeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHH
Q 022525          104 CMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                      ++|.+....      .........+...+..+. +.||||||||||+++  ......+..||.+++|+.++..++..+.+
T Consensus        80 ~lp~~~~~~------~~~~~~~~~l~~~l~~l~-~~yD~VIiD~p~~~~--~~~~~~l~~ad~vliv~~~~~~s~~~~~~  150 (251)
T TIGR01969        80 VIPAGVSLE------GLRKADPDKLEDVLKEII-DDTDFLLIDAPAGLE--RDAVTALAAADELLLVVNPEISSITDALK  150 (251)
T ss_pred             EEeCCCCHH------HHhhcCHHHHHHHHHHHH-hhCCEEEEeCCCccC--HHHHHHHHhCCeEEEEECCCCchHHHHHH
Confidence            665442111      111122456778888887 899999999999998  45667778999999999999999999888


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChHH
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVS  263 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~  263 (295)
                      .++.+...+.+..++|+|+++....          ....+++.+.++.++++.||+++.+.++...|+|++++.|+++++
T Consensus       151 ~~~~~~~~~~~~~~vv~N~~~~~~~----------~~~~~~l~~~~~~~~l~~Ip~~~~~~~a~~~g~~v~~~~~~~~~~  220 (251)
T TIGR01969       151 TKIVAEKLGTAILGVVLNRVTRDKT----------ELGREEIETILEVPVLGVVPEDPEVRRAAAFGEPVVIYNPNSPAA  220 (251)
T ss_pred             HHHHHHhcCCceEEEEEECCCchhh----------hhHHHHHHHhhCCcEEEEecCCHhHHHHHHcCCceEEeCCCCHHH
Confidence            8888877788888999999873210          112455566678899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q 022525          264 RAYGEVAVNVVNRLQE  279 (295)
Q Consensus       264 ~~~~~l~~~l~~~~~~  279 (295)
                      ++|++|+++|..+...
T Consensus       221 ~~~~~la~~i~~~~~~  236 (251)
T TIGR01969       221 QAFMELAAELAGIEYE  236 (251)
T ss_pred             HHHHHHHHHHHhcccc
Confidence            9999999999887644

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=100.00  E-value=3.5e-35  Score=252.03  Aligned_cols=233  Identities=21%  Similarity=0.200  Sum_probs=173.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC-----------ccccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM-----------KMVPIEN   99 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~-----------~~~~~~~   99 (295)
                      ||+|+|+ +||||||||+++|||++||+ +|+||++||+|+|++++..++|..+...+.+..           .......
T Consensus         1 ~~~iav~-gKGGVGKTT~a~nLA~~La~-~G~rVllvD~Dpq~~~~~~l~g~~~~~~~~d~l~~~~~~~~~~~~~i~~~~   78 (273)
T PRK13232          1 MRQIAIY-GKGGIGKSTTTQNLTAALST-MGNKILLVGCDPKADSTRMLLGGLNQKTVLDTLRSEGDEGVDLDVVMQPGF   78 (273)
T ss_pred             CCEEEEE-CCCCCcHHHHHHHHHHHHHh-hCCCeEEEecccccccchhhcCCCCCCcHHHHHHhcCCCCCCHHHEEEeCC
Confidence            4899999 99999999999999999999 999999999999999888777654333322211           0111123


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc-chhhhhhccCceEEEeeCCCcchH
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA-QLTTTQTLQLSGALIVSTPQDVAL  178 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~-~~~~~~l~~ad~viiv~~~~~~s~  178 (295)
                      .++.+++.+..... .....++......+.+.++.+. ++||||||||++++... ......+..||.+++|+.|+..++
T Consensus        79 ~~i~~i~~~~~~~~-~~~~~~~~~~~~~l~~~l~~~~-~~yD~vlID~~~~~~~~~~~~~~al~aad~vlip~~p~~~sl  156 (273)
T PRK13232         79 GDIKCVESGGPEPG-VGCAGRGIITSIGLLENLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAKEIYIVASGELMAI  156 (273)
T ss_pred             CCeEEEeCCCCCCC-CCCCCCchhHHHHHHHHccccc-ccCCEEEEecCCCeeECCEeccccccccceEEEecCchHHHH
Confidence            56777776542221 1111222222334666777776 88999999998776422 122222347999999999999999


Q ss_pred             HHHHHHHHHHhc---CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEE
Q 022525          179 IDARKGITMFSK---VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVI  255 (295)
Q Consensus       179 ~~~~~~~~~l~~---~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~  255 (295)
                      .++..+++.++.   .+.++.|+|+|+...       .   ..+...+++.+.++..+++.||++..+.++...|+|++.
T Consensus       157 ~~~~~~~k~l~~~~~~~l~~~GiV~n~~~~-------~---~~~~~~e~l~~~~~~~vl~~Ip~~~~v~~A~~~g~pv~~  226 (273)
T PRK13232        157 YAANNICKGLAKFAKGGARLGGIICNSRNV-------D---GERELLEAFAKKLGSQLIHFVPRDNIVQRAEINRKTVID  226 (273)
T ss_pred             HHHHHHHHHHHHHhCCCCceeEEEEeCCCC-------C---ccHHHHHHHHHHhCCCeEEECCCCHHHHHHHHcCCCeEE
Confidence            998888887764   356778999997641       0   012457888888998899999999999999999999999


Q ss_pred             cCCCChHHHHHHHHHHHHHHHH
Q 022525          256 SAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       256 ~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      +.|+++++++|.+++++|+++.
T Consensus       227 ~~p~s~~a~~y~~La~el~~~~  248 (273)
T PRK13232        227 FDPESNQAKEYLTLAHNVQNND  248 (273)
T ss_pred             eCCCChHHHHHHHHHHHHHhCC
Confidence            9999999999999999998663

>CHL00175 minD septum-site determining protein; Validated

Probab=100.00  E-value=6.6e-35  Score=251.52  Aligned_cols=234  Identities=18%  Similarity=0.286  Sum_probs=183.1

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc--cccccC--------cccc
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP--EVTKDM--------KMVP   96 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~--~~~~~~--------~~~~   96 (295)
                      ...++++|+|+|+||||||||+|+|||++|++ .|++|++||+|++.++++.++|.++..  ++.+..        ....
T Consensus        11 ~~~~~~vi~v~s~KGGvGKTt~a~nLA~~La~-~g~~vlliD~D~~~~~l~~~lg~~~~~~~~~~d~l~~~~~l~~~~~~   89 (281)
T CHL00175         11 SATMSRIIVITSGKGGVGKTTTTANLGMSIAR-LGYRVALIDADIGLRNLDLLLGLENRVLYTAMDVLEGECRLDQALIR   89 (281)
T ss_pred             cCCCceEEEEEcCCCCCcHHHHHHHHHHHHHh-CCCeEEEEeCCCCCCChhhhcCCCCCCCCCHHHHHcCCCChhhheee
Confidence            45568999999999999999999999999999 999999999999988999999987532  222211        0111


Q ss_pred             -cccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCC-CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC
Q 022525           97 -IENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWG-NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ  174 (295)
Q Consensus        97 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~-~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~  174 (295)
                       ....++.+++.+.....       .......+..+++.++ . .||||||||||+++  ......+..+|.+++|+.|+
T Consensus        90 ~~~~~~l~~l~~~~~~~~-------~~~~~~~l~~~l~~l~-~~~yD~VIiDtpp~~~--~~~~~~l~~aD~viiV~~p~  159 (281)
T CHL00175         90 DKRWKNLSLLAISKNRQR-------YNVTRKNMNMLVDSLK-NRGYDYILIDCPAGID--VGFINAIAPAQEAIVVTTPE  159 (281)
T ss_pred             cCCCCCeEEEeCCCchhh-------ccCCHHHHHHHHHHHH-hCCCCEEEEeCCCCCC--HHHHHHHHhcCeeEEEcCCC
Confidence             12345666665422110       1122446788888887 6 89999999999987  44556677899999999999


Q ss_pred             cchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceE
Q 022525          175 DVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVV  254 (295)
Q Consensus       175 ~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~  254 (295)
                      ..++.++.++++.+.+.+...+++|+|+++.....   ..   .....+++.+.++.++++.||++..+.++...|+|+.
T Consensus       160 ~~si~~~~~~~~~l~~~~~~~~~lvvN~~~~~~~~---~~---~~~~~~~l~~~~~~~~~~~Ip~d~~v~~a~~~g~~~~  233 (281)
T CHL00175        160 ITAIRDADRVAGLLEANGIYNVKLLVNRVRPDMIQ---AN---DMMSVRDVQEMLGIPLLGAIPEDENVIISTNRGEPLV  233 (281)
T ss_pred             hHHHHHHHHHHHHHHHcCCCceEEEEeccChhhhh---hh---ccccHHHHHHHhCCCeEEEccCCHhHHHHHHcCCceE
Confidence            99999999999999987777788999998742110   00   0113567788899999999999999999999999999


Q ss_pred             EcCCCChHHHHHHHHHHHHHHHH
Q 022525          255 ISAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       255 ~~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      +..|.++++++|++|+++|.++.
T Consensus       234 ~~~~~~~~~~~~~~la~~l~~~~  256 (281)
T CHL00175        234 LNKKLTLSGIAFENAARRLVGKQ  256 (281)
T ss_pred             eCCCCCHHHHHHHHHHHHHhccc
Confidence            99999999999999999999854

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=100.00  E-value=5.7e-34  Score=244.95  Aligned_cols=230  Identities=20%  Similarity=0.230  Sum_probs=169.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC-----------cccccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM-----------KMVPIE   98 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~-----------~~~~~~   98 (295)
                      |+++|+|+ +||||||||+|+|||++||+++|+|||+||+|+|++++..++|.....++.+..           ......
T Consensus         1 M~~vIav~-~KGGVGKTT~a~nLA~~La~~~G~rvLliD~Dpq~~~t~~~~g~~~~~~l~~~l~~~~~~~~~~~~~~~~~   79 (275)
T PRK13233          1 MTRKIAIY-GKGGIGKSTTTQNTAAAMAYFHDKKVFIHGCDPKADSTRLILGGKPQTTMMDTLRELGEEKVTPDKVIKTG   79 (275)
T ss_pred             CceEEEEE-cCCCCcHHHHHHHHHHHHHHhcCCeEEEeccCcCcChHHHHhCCCCCCcHHHHHHHhCCCCCCHHHHeeeC
Confidence            46999999 899999999999999999962499999999999997766566665443332211           112223


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc------cCceEEEeeC
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL------QLSGALIVST  172 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~------~ad~viiv~~  172 (295)
                      ..+++++|.+..... .....++......+...++.+. +.||||||||++.+.     ...+.      .||.+|+|+.
T Consensus        80 ~~~l~~ipa~~~~~~-~~~~~~~~~~~~~l~~~l~~~~-~~yD~iliD~~~~~~-----~~al~~~~~~~aad~viIp~~  152 (275)
T PRK13233         80 FKDIRCVESGGPEPG-VGCAGRGVITAIDLMEENGAYT-DDLDFVFFDVLGDVV-----CGGFAMPIRDGKAQEVYIVAS  152 (275)
T ss_pred             CCCcEEEECCCCCCC-CCCCCcchhHHHHHHHHcCCcc-CCCCEEEEecCCcee-----eccccccchhccCceEEEecc
Confidence            456778877643221 1111112111122556666676 889999999964332     22233      6999999999


Q ss_pred             CCcchHHHHHHHHHHHh----cCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccccccc
Q 022525          173 PQDVALIDARKGITMFS----KVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSD  248 (295)
Q Consensus       173 ~~~~s~~~~~~~~~~l~----~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~  248 (295)
                      |+..++.++.++++.+.    +.++++.|+|+|+...       .   ......+++.+.++.++++.||++..+.++..
T Consensus       153 p~~~sl~g~~~l~~~i~~~~~~~~l~~~Giv~n~~~~-------~---~~~~~~e~l~~~~~~~~l~~Ip~~~~v~~A~~  222 (275)
T PRK13233        153 GEMMAIYAANNICKGLVKYAEQSGVRLGGIICNSRNV-------D---GELELLEEFTDAIGTQMIHFVPRDNIVQKAEF  222 (275)
T ss_pred             ccHHHHHHHHHHHHHHHHHHhcCCCceeEEEeeCCCC-------C---cHHHHHHHHHHHcCCceeeecCcchHHHHHHH
Confidence            99999999988876663    4567889999996421       0   01245778888899888899999999999999


Q ss_pred             CCCceEEcCCCChHHHHHHHHHHHHHHHH
Q 022525          249 DGVPVVISAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       249 ~g~~i~~~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      .|+|++++.|+++++++|.+++++++++.
T Consensus       223 ~g~pv~~~~~~s~~a~~y~~La~ell~~~  251 (275)
T PRK13233        223 NKKTVVEFDPDCNQAKEYKELARKIIENK  251 (275)
T ss_pred             cCCCEEEECCCCHHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999998754

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=100.00  E-value=1.9e-33  Score=240.06  Aligned_cols=228  Identities=23%  Similarity=0.341  Sum_probs=176.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc--cccccCc--------ccc-ccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP--EVTKDMK--------MVP-IEN   99 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~--~~~~~~~--------~~~-~~~   99 (295)
                      +++|+|+|.||||||||+|+|||..|++ .|++|++||+|+|+++++.++|.+...  ++.+...        ... ...
T Consensus         1 ~~ii~v~s~kGGvGKTt~a~~lA~~la~-~g~~vlliD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~i~~~~~~   79 (261)
T TIGR01968         1 ARVIVITSGKGGVGKTTTTANLGTALAR-LGKKVVLIDADIGLRNLDLLLGLENRIVYTLVDVVEGECRLQQALIKDKRL   79 (261)
T ss_pred             CeEEEEecCCCCccHHHHHHHHHHHHHH-cCCeEEEEECCCCCCCeeEEeCCCCcCCCCHHHHhcCcCcHHHHhhcCCCC
Confidence            4899999999999999999999999999 999999999999988999889886432  2211100        000 122


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~  179 (295)
                      .++.+++.+....       ........+..+++.++ +.||||||||||+++.  .....+..+|.+|+|+.|+..++.
T Consensus        80 ~~l~~l~~~~~~~-------~~~~~~~~l~~~l~~l~-~~~D~viiD~p~~~~~--~~~~~l~~aD~viiv~~~~~~s~~  149 (261)
T TIGR01968        80 KNLYLLPASQTRD-------KDAVTPEQMKKLVNELK-EEFDYVIIDCPAGIES--GFRNAVAPADEAIVVTTPEVSAVR  149 (261)
T ss_pred             CCeEEEeCCCchh-------hhhCCHHHHHHHHHHHH-HhCCEEEEeCCCCcCH--HHHHHHHhCCeEEEEcCCCcHHHH
Confidence            4566665543111       11122456778888888 8999999999999874  445667899999999999999999


Q ss_pred             HHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCC
Q 022525          180 DARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPD  259 (295)
Q Consensus       180 ~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~  259 (295)
                      ++.++++.++..+....++|+|+++........      ....+++.+.++.++++.||++..+.++...|+|+++..+ 
T Consensus       150 ~~~~~~~~l~~~~~~~~~iviN~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~Ip~~~~~~~a~~~g~~v~~~~~-  222 (261)
T TIGR01968       150 DADRVIGLLEAKGIEKIHLIVNRLRPEMVKKGD------MLSVDDVLEILSIPLIGVIPEDEAIIVSTNKGEPVVLNDK-  222 (261)
T ss_pred             HHHHHHHHHHHcCCCceEEEEeCcCchhccccc------ccCHHHHHHHhCCceeEEccCCHHHHHHHhcCCCeecCCC-
Confidence            999999999887766778999998743111100      1125678888899999999999999999999999998754 


Q ss_pred             ChHHHHHHHHHHHHHHH
Q 022525          260 STVSRAYGEVAVNVVNR  276 (295)
Q Consensus       260 s~~~~~~~~l~~~l~~~  276 (295)
                      ++++++|.+|+++|+.+
T Consensus       223 s~~~~~~~~La~~l~~~  239 (261)
T TIGR01968       223 SRAGKAFENIARRILGE  239 (261)
T ss_pred             ChHHHHHHHHHHHHhcC
Confidence            89999999999999763

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=100.00  E-value=3.2e-33  Score=240.00  Aligned_cols=232  Identities=20%  Similarity=0.184  Sum_probs=161.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC----------cccccccC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM----------KMVPIENY  100 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~----------~~~~~~~~  100 (295)
                      |++|+|+ +||||||||+|+|||++||+ .|+|||+||+|+|++++..++|......+.+..          ...+....
T Consensus         1 m~~iav~-~KGGVGKTT~~~nLA~~La~-~G~rVLlID~Dpq~~~t~~l~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~   78 (274)
T PRK13235          1 MRKVAIY-GKGGIGKSTTTQNTVAGLAE-MGKKVMVVGCDPKADSTRLLLGGLAQKTVLDTLREEGEDVELEDIRKEGYG   78 (274)
T ss_pred             CCEEEEe-CCCCccHHHHHHHHHHHHHH-CCCcEEEEecCCcccccccccCCCCCccHHHHHHhcCCCCCHHHHhhcCCC
Confidence            4899999 79999999999999999999 999999999999998776665443332322111          11122234


Q ss_pred             CceeeccccccCCCCCCccCCchHHHHHHHHHHhc--cCCCccEEEEcCCCCCCccc-hhhhhhccCceEEEeeCCCcch
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREV--DWGNLDILVIDMPPGTGDAQ-LTTTQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l--~~~~yD~iiiD~~~~~~~~~-~~~~~l~~ad~viiv~~~~~~s  177 (295)
                      +++++|.+..... .............+.+.+...  . +.||||||||++.+.... .....+.+||.+++|+.++..+
T Consensus        79 ~l~~ip~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~-~~yD~ilID~~~~~~~~~l~~~~a~~aad~vlIp~~~e~~s  156 (274)
T PRK13235         79 GTRCTESGGPEPG-VGCAGRGIITSVNLLEQLGAYDDE-WNLDYVFYDVLGDVVCGGFAMPIRDGKAEEIYIVCSGEMMA  156 (274)
T ss_pred             CCEEEeCCCCCCC-CCCCCCceeehhHHHHhhchhhcc-CCCCEEEEECCCCCccCCcccccccccccEEEEEecCchhH
Confidence            5666664422121 011111111110122222221  3 679999999976654211 2222233799999999999999


Q ss_pred             HHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCce
Q 022525          178 LIDARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPV  253 (295)
Q Consensus       178 ~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i  253 (295)
                      +.++..+++.+++    .++.+.|+|+|+...          ...++..+++.+.++..+++.||++..+.++...|+|+
T Consensus       157 l~g~~~ll~~i~~~~~~~~l~i~giv~n~~~~----------~~~~e~~~~l~~~~~~~ll~~Ip~~~~v~~A~~~g~pv  226 (274)
T PRK13235        157 MYAANNICKGILKYADAGGVRLGGLICNSRKV----------DNEREMIEELARKIGTQMIHFVPRDNFVQRAEINRKTV  226 (274)
T ss_pred             HHHHHHHHHHHHHHhhcCCCceeEEEEecCCC----------CchHHHHHHHHHHcCCceEEeCCCCHHHHHHHhcCCcE
Confidence            9999888776543    356677899996421          01234577788888988889999999999999999999


Q ss_pred             EEcCCCChHHHHHHHHHHHHHHH
Q 022525          254 VISAPDSTVSRAYGEVAVNVVNR  276 (295)
Q Consensus       254 ~~~~~~s~~~~~~~~l~~~l~~~  276 (295)
                      +++.|+++++++|.+++++|+++
T Consensus       227 ~~~~p~s~~a~~y~~La~el~~~  249 (274)
T PRK13235        227 IEYDPTHPQADEYRALARKIDEN  249 (274)
T ss_pred             EEECCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999999754

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=100.00  E-value=4.8e-34  Score=241.75  Aligned_cols=233  Identities=19%  Similarity=0.203  Sum_probs=168.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc--cccccC-------cccccccCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP--EVTKDM-------KMVPIENYG  101 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~--~~~~~~-------~~~~~~~~~  101 (295)
                      |++|+|+|+||||||||+|+|||+.||+ +|+||++||+|+|+ +++..+|.+...  ++.+..       ........+
T Consensus         1 m~iI~v~s~KGGvGKTt~a~nla~~la~-~g~~VlliD~D~q~-~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   78 (246)
T TIGR03371         1 MKVIAIVGVKGGVGKTTLTANLASALKL-LGEPVLAIDLDPQN-LLRLHFGMDWSVRDGWARALLNGEPWAAAAYRSSDG   78 (246)
T ss_pred             CcEEEEEeCCCCccHHHHHHHHHHHHHh-CCCcEEEEeCCCcc-hHHHHhCCCCccCCcHHHHHhcCCChHHhHhhcCCC
Confidence            5899999999999999999999999999 99999999999997 567777766532  122110       001112345


Q ss_pred             ceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHH
Q 022525          102 VKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDA  181 (295)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~  181 (295)
                      +++++.+..........  .......++++++.+....||+|||||||+.+  .+....+..||.+++|+.|+..++..+
T Consensus        79 l~~ip~~~~~~~~~~~~--~~~~~~~l~~~l~~l~~~~~D~viiD~pp~~~--~~~~~~l~~ad~vii~~~~~~~s~~~~  154 (246)
T TIGR03371        79 VLFLPFGDLSADEREAY--QAHDAGWLARLLQQLDLAARDWVLIDVPRGPS--PITRQALAAADLVLVVVNADAACYATL  154 (246)
T ss_pred             eEEecCCCCcHHHHHHH--hhcCHHHHHHHHHhcccCCCCEEEEECCCCch--HHHHHHHHhCCeEEEEeCCCHHHHHHH
Confidence            56665443211111000  00113456777877763346999999999888  567788889999999999999999888


Q ss_pred             HH-HHHHHhcCC-CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcE-EEeecCCccccccccCCCceEEcCC
Q 022525          182 RK-GITMFSKVQ-VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKV-IGEIPIEMDIRKGSDDGVPVVISAP  258 (295)
Q Consensus       182 ~~-~~~~l~~~~-~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~-~~~Ip~~~~~~~a~~~g~~i~~~~~  258 (295)
                      .+ ..+.++... ...+++|+|+++.+..        ..++..+.+.+.++.++ .+.||++..+.++...|+|++++.|
T Consensus       155 ~~~~~~l~~~~~~~~~~~iv~n~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~a~~~g~pv~~~~~  226 (246)
T TIGR03371       155 HQQALALFAGSGPRIGPHFLINQFDPARQ--------LSRDVRAVLRQTLGSRLLPFVIHRDEAVSEALARGTPVLNYAP  226 (246)
T ss_pred             HHHHHHHhhcccccccceEEeeccCcchh--------hHHHHHHHHHHHhcccccCCcccchhhHHHHHHcCCCccccCC
Confidence            84 444444222 2336899999974311        12234555667778864 4689999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHHHH
Q 022525          259 DSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       259 ~s~~~~~~~~l~~~l~~~~  277 (295)
                      .++++++|++++++|++.+
T Consensus       227 ~s~~~~~~~~la~~~l~~~  245 (246)
T TIGR03371       227 HSQAAHDIRTLAGWLLSKL  245 (246)
T ss_pred             cCHHHHHHHHHHHHHHHHh
Confidence            9999999999999999875

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK10818 cell division inhibitor MinD; Provisional

Probab=100.00  E-value=1.3e-33  Score=242.28  Aligned_cols=231  Identities=17%  Similarity=0.258  Sum_probs=174.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc--ccccc-------Cc-ccc-cc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP--EVTKD-------MK-MVP-IE   98 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~--~~~~~-------~~-~~~-~~   98 (295)
                      |+++|+|.|+||||||||+|+|||+.||+ +|++|++||+|+|.++++.++|.+...  ++.+.       .. ... ..
T Consensus         1 m~kviav~s~KGGvGKTt~a~nlA~~la~-~g~~vllvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (270)
T PRK10818          1 MARIIVVTSGKGGVGKTTSSAAIATGLAQ-KGKKTVVIDFDIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKR   79 (270)
T ss_pred             CceEEEEEeCCCCCcHHHHHHHHHHHHHH-CCCeEEEEECCCCCCChhhhhCCCcccccCHHHHhcCCCcHHHhccccCC
Confidence            47999999999999999999999999999 999999999999988999999886532  21111       00 111 12


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL  178 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~  178 (295)
                      ..++.++|.+....       .+......+.++++.++...||||||||||+++  ......+..+|.+++|+.|+..++
T Consensus        80 ~~~~~~lp~~~~~~-------~~~~~~~~~~~~l~~l~~~~yd~viiD~p~~~~--~~~~~~l~~ad~vivv~~p~~~sl  150 (270)
T PRK10818         80 TENLYILPASQTRD-------KDALTREGVAKVLDDLKAMDFEFIVCDSPAGIE--TGALMALYFADEAIITTNPEVSSV  150 (270)
T ss_pred             cCCEEEecCCCCcc-------hhhhCHHHHHHHHHHHhhcCCCEEEEeCCCCcc--HHHHHHHHhCCeEEEEcCCCchHH
Confidence            35666666553211       111223456677777752479999999999998  456677889999999999999999


Q ss_pred             HHHHHHHHHHhcC-------CCCe-eeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCC
Q 022525          179 IDARKGITMFSKV-------QVPI-LGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDG  250 (295)
Q Consensus       179 ~~~~~~~~~l~~~-------~~~~-~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g  250 (295)
                      ..+.++++.+...       ..+. .++|+|+++.+....      ......+++.+.+|.++++.||++..+.++...|
T Consensus       151 ~~~~~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~~~~~~------~~~~~~~~~~~~~g~~~~~~Ip~~~~v~~a~~~G  224 (270)
T PRK10818        151 RDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPGRVSR------GDMLSMEDVLEILRIKLVGVIPEDQSVLRASNQG  224 (270)
T ss_pred             HhHHHHHHHHHHhhccccccccccceEEEEeccCHhhhhh------cccccHHHHHHHhCCcEEEEecCCHHHHHHHHcC
Confidence            9999999987631       1122 478999987432110      0012367788889999999999999999999999


Q ss_pred             CceEEcCCCChHHHHHHHHHHHHHHHH
Q 022525          251 VPVVISAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       251 ~~i~~~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      +|+. ..|+++.+++|++|+++|.++.
T Consensus       225 ~~v~-~~~~~~~~~~~~~la~~l~~~~  250 (270)
T PRK10818        225 EPVI-LDIEADAGKAYADTVDRLLGEE  250 (270)
T ss_pred             CeeE-eCCCCHHHHHHHHHHHHHhCCC
Confidence            9998 5788899999999999987643

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=100.00  E-value=2.8e-33  Score=240.26  Aligned_cols=235  Identities=23%  Similarity=0.245  Sum_probs=164.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc-----------Cccccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD-----------MKMVPIEN   99 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~-----------~~~~~~~~   99 (295)
                      |++|+|. +||||||||+|+|||.+||+ +|+||++||+|+|++.+..+.+.....++.+.           ........
T Consensus         1 m~~iav~-~KGGvGKTT~~~nLA~~La~-~G~kVlliD~Dpq~n~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~   78 (270)
T cd02040           1 MRQIAIY-GKGGIGKSTTTQNLSAALAE-MGKKVMIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVELELEDVIFEGF   78 (270)
T ss_pred             CcEEEEE-eCCcCCHHHHHHHHHHHHHh-CCCeEEEEEcCCCCCchhhhcCCCCCCcHHHHHHhhcccccchhhheeecC
Confidence            5899998 69999999999999999999 99999999999998766555543322222111           11111123


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch-hhhhhccCceEEEeeCCCcchH
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL-TTTQTLQLSGALIVSTPQDVAL  178 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~-~~~~l~~ad~viiv~~~~~~s~  178 (295)
                      .+++++|.+...+... ...........+.+.+..+. +.||||||||++.+....+ ....+..||.+|+|+.|+..++
T Consensus        79 ~~l~~ip~~~~~~~~~-~~~~~~~~~~~~l~~l~~~~-~~yD~viID~~g~~~~~~~~~~~~~~aaD~vlip~~p~~~sl  156 (270)
T cd02040          79 GGIKCVESGGPEPGVG-CAGRGVITAINLLEELGAYE-DDLDFVIYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEMMAL  156 (270)
T ss_pred             CCeEEEeCCCCCCCCC-CcCcchhhHHHHHHhcCccc-cCCCEEEEecccCcccCCcccccccccccEEEEEecCchHHH
Confidence            5677777664332211 11111111112223344555 7899999999876532112 1112236999999999999999


Q ss_pred             HHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceE
Q 022525          179 IDARKGITMFSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVV  254 (295)
Q Consensus       179 ~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~  254 (295)
                      .++.++++.+...    +.++.++|.|+...          .......+++++.+|.++++.||++..+.++...|+|++
T Consensus       157 ~~~~~l~~~i~~~~~~~~~~l~gVv~n~~~~----------~~~~~~~~~l~~~~g~~vl~~Ip~~~~v~~A~~~g~pv~  226 (270)
T cd02040         157 YAANNICKGILKYAKSGGVRLGGLICNSRNT----------DREDELIDAFAKRLGTQMIHFVPRDNVVQRAELRGKTVI  226 (270)
T ss_pred             HHHHHHHHHHHHhCccCCCceEEEEEecCCC----------hhHHHHHHHHHHHcCCCeEeecCCcHHHHHHHHcCCceE
Confidence            9888777665442    46677788886431          112245778888899999999999999999999999999


Q ss_pred             EcCCCChHHHHHHHHHHHHHHHHHH
Q 022525          255 ISAPDSTVSRAYGEVAVNVVNRLQE  279 (295)
Q Consensus       255 ~~~~~s~~~~~~~~l~~~l~~~~~~  279 (295)
                      ++.|+++++++|++++++++++.+-
T Consensus       227 ~~~p~~~aa~~~~~La~el~~~~~~  251 (270)
T cd02040         227 EYDPESKQADEYRELARKIVENKLL  251 (270)
T ss_pred             EecCCCHHHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999886443

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=100.00  E-value=3.7e-33  Score=239.33  Aligned_cols=227  Identities=22%  Similarity=0.229  Sum_probs=162.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC-------------cccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM-------------KMVP   96 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~-------------~~~~   96 (295)
                      |+++|+|. +||||||||+++|||++||+ +|+|||+||+|||+ +++.+++.....++.+..             ....
T Consensus         1 m~~iIav~-~KGGVGKTT~~~nLA~~la~-~G~kVLliD~Dpq~-~~t~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~i~   77 (270)
T PRK13185          1 MALVLAVY-GKGGIGKSTTSSNLSAAFAK-LGKKVLQIGCDPKH-DSTFTLTGKLVPTVIDILEEVDFHSEELRPEDFVY   77 (270)
T ss_pred             CceEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCeEEEEeccCCc-chhhhhcCCCCCcHHHHHHhccccccCCCHHHhee
Confidence            47999998 69999999999999999999 99999999999997 445555432222221111             0111


Q ss_pred             cccCCceeeccccccCCCCCCccCCchHHHHHHHHHHh--ccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC
Q 022525           97 IENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSRE--VDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ  174 (295)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~  174 (295)
                      ....++++++.+...... ......   ......+++.  +. ++||||||||++++.... ....+..||.+|+|+.|+
T Consensus        78 ~~~~~l~~ip~~~~~~~~-~~~~~~---~~~~~~~l~~~~~~-~~yD~viIDt~g~~~~~~-~~~~l~~AD~viip~~~~  151 (270)
T PRK13185         78 EGYNGVDCVEAGGPPAGT-GCGGYV---VGETVKLLKEHHLL-DDYDVILFDVLGDVVCGG-FAAPLQYADYALIVTAND  151 (270)
T ss_pred             eCCCCcEEEECCCCCCCC-Cccchh---HHHHHHHHHhcCcc-ccCCEEEEecCCCcccCc-ccchhhhCcEEEEEecCc
Confidence            123577888766432211 111100   1111122222  34 789999999987765322 234466899999999999


Q ss_pred             cchHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCC
Q 022525          175 DVALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDG  250 (295)
Q Consensus       175 ~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g  250 (295)
                      ..++.++.++++.++.    .+++..++|+|+++.             ....+++.+.++.++++.||++..+.++...|
T Consensus       152 ~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~~-------------~~~~~~~~~~~g~~vl~~Ip~~~~i~~A~~~G  218 (270)
T PRK13185        152 FDSIFAANRIAAAIQAKAKNYKVRLAGVIANRSAG-------------TDLIDKFNEAVGLKVLAHVPDLDAIRRSRLKG  218 (270)
T ss_pred             hhhHHHHHHHHHHHHhhhhccCCCceEEEEeccCh-------------HHHHHHHHHHcCCCEEEECCCCcccChHHHcC
Confidence            9999999888887653    456678999999751             13467888889999999999999999999999


Q ss_pred             CceEEcCCCC----hHHHHHHHHHHHHHHHHH
Q 022525          251 VPVVISAPDS----TVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       251 ~~i~~~~~~s----~~~~~~~~l~~~l~~~~~  278 (295)
                      .|++++.|.+    +++++|++++++++++..
T Consensus       219 ~pv~~~~~~~~~~~~aa~~~~~la~el~~~~~  250 (270)
T PRK13185        219 KTLFEMEETDPGLEEVQNEYLRLAEQLLAGPE  250 (270)
T ss_pred             CcHhhhCcCCccchHHHHHHHHHHHHHHhcCC
Confidence            9999998864    478999999999876443

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=100.00  E-value=1e-32  Score=237.31  Aligned_cols=225  Identities=20%  Similarity=0.176  Sum_probs=161.0

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc-------------CcccccccC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD-------------MKMVPIENY  100 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~-------------~~~~~~~~~  100 (295)
                      |+|++ ||||||||+++|||++||+ .|+|||+||+|+|++.+..+.|... .++.+.             .........
T Consensus         3 ia~~g-KGGVGKTTta~nLA~~La~-~G~rVLlID~DpQ~n~t~~l~g~~~-~~i~~~~~~~~~~~~~~~~~~~i~~~~~   79 (290)
T CHL00072          3 LAVYG-KGGIGKSTTSCNISIALAR-RGKKVLQIGCDPKHDSTFTLTGFLI-PTIIDTLQSKDYHYEDVWPEDVIYKGYG   79 (290)
T ss_pred             EEEEC-CCCCcHHHHHHHHHHHHHH-CCCeEEEEeccCCCcccccccCcCC-CCHHHHHhhcccccccCChhheEEeCCC
Confidence            88876 9999999999999999999 9999999999999865544445422 121110             111112245


Q ss_pred             CceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHH
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                      +++++|.+........ ..........+.+.+..+  ++||||||||++++....+ ...+..||.+|+|+.|+..++.+
T Consensus        80 ~l~lip~~~~~~~~~~-~~~~~~~~~~ll~~l~~~--~~yD~IiIDt~~~l~~~a~-~aal~~AD~viIp~~p~~~sl~~  155 (290)
T CHL00072         80 GVDCVEAGGPPAGAGC-GGYVVGETVKLLKELNAF--YEYDIILFDVLGDVVCGGF-AAPLNYADYCIIITDNGFDALFA  155 (290)
T ss_pred             CeEEEeCCCCCCccch-hhcccHHHHHHHHHhhcc--ccCCEEEEecCCcceechh-hhhhhcCCEEEEEecCCHHHHHH
Confidence            6777776643322111 000000011122222222  4799999999887653222 34567899999999999999999


Q ss_pred             HHHHHHHHhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEc
Q 022525          181 ARKGITMFSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVIS  256 (295)
Q Consensus       181 ~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~  256 (295)
                      +.++++.++..    +++..++|+|+++.             +...+++.+.++.+++..||++..+.++...|+|++++
T Consensus       156 ~~~l~~~i~~~~~~~~l~~~gvv~n~~~~-------------~~~~~~~~~~~~~~vl~~Ip~~~~v~~A~~~g~pv~~~  222 (290)
T CHL00072        156 ANRIAASVREKARTHPLRLAGLVGNRTSK-------------RDLIDKYVEACPMPVLEVLPLIEDIRVSRVKGKTLFEM  222 (290)
T ss_pred             HHHHHHHHHHHhccCCCceEEEEEeCCCc-------------hhHHHHHHHHcCCceEEECCCChHHHHHHhCCCceEEe
Confidence            99888777653    45678999999862             13466778888999999999999999999999999999


Q ss_pred             CCCCh----HHHHHHHHHHHHHHHHH
Q 022525          257 APDST----VSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       257 ~~~s~----~~~~~~~l~~~l~~~~~  278 (295)
                      .|+++    ++++|.+|+++|+++.+
T Consensus       223 ~p~s~~~~~~a~~y~~La~ell~~~~  248 (290)
T CHL00072        223 VESEPSLNYVCDYYLNIADQLLSQPE  248 (290)
T ss_pred             CCCCcchhHHHHHHHHHHHHHHhCCC
Confidence            99988    58999999999987644

>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

Probab=100.00  E-value=2.1e-33  Score=221.33  Aligned_cols=234  Identities=21%  Similarity=0.292  Sum_probs=182.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccc--ccc---C------cccccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV--TKD---M------KMVPIE   98 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~--~~~---~------~~~~~~   98 (295)
                      |+++|.|+|+||||||||+++||+.+||+ +|+||++||+|..--++...+|++..--.  .++   .      .+....
T Consensus         1 M~~iIVvTSGKGGVGKTTttAnig~aLA~-~GkKv~liD~DiGLRNLDlimGlE~RiVYd~vdVi~g~~~l~QALIkDKr   79 (272)
T COG2894           1 MARIIVVTSGKGGVGKTTTTANIGTALAQ-LGKKVVLIDFDIGLRNLDLIMGLENRIVYDLVDVIEGEATLNQALIKDKR   79 (272)
T ss_pred             CceEEEEecCCCCcCccchhHHHHHHHHH-cCCeEEEEecCcCchhhhhhhcccceeeeeehhhhcCccchhhHhhcccc
Confidence            47999999999999999999999999999 99999999999998899999999875222  221   0      111233


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL  178 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~  178 (295)
                      ..++.++|+.-..       .-+....+.+..++++|+..+|||||+|||+|+...  ...++..||..++|+.|...|+
T Consensus        80 ~~nL~lLPAsQtr-------dKdalt~E~v~~vv~eL~~~~fDyIi~DsPAGIE~G--~~~A~~~Ad~AiVVtnPEvSsV  150 (272)
T COG2894          80 LENLFLLPASQTR-------DKDALTPEGVKKVVNELKAMDFDYIIIDSPAGIEQG--FKNAVYFADEAIVVTNPEVSSV  150 (272)
T ss_pred             CCceEeccccccc-------CcccCCHHHHHHHHHHHHhcCCCEEEecCcchHHHH--HHhhhhccceEEEEcCCCcccc
Confidence            4455555543111       112234677888888887578999999999999853  3466778999999999999999


Q ss_pred             HHHHHHHHHHhcCC----CC---eeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCC
Q 022525          179 IDARKGITMFSKVQ----VP---ILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGV  251 (295)
Q Consensus       179 ~~~~~~~~~l~~~~----~~---~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~  251 (295)
                      +++.+.+-.++..+    ..   ...+++|++++..-...   ..   ...+++.+-+.+++++.||.+..+..+.+.|.
T Consensus       151 RDsDRiiGlLesk~~rae~~~~~~~~llvnR~~p~~v~~G---eM---lsv~Dv~~iL~i~liGiiPed~~Vi~asN~Ge  224 (272)
T COG2894         151 RDSDRIIGLLESKSRRAEIGEEPKEHLLLNRYRPEMVKRG---EM---LSVEDVLEILSIPLIGVIPEDQDVLRASNKGE  224 (272)
T ss_pred             ccchhheeehhcccchhhcCCcccceEEEEccCHHHhccC---Cc---ccHHHHHHHhCCceEEeecCchhhheecCCCC
Confidence            99999998887654    21   26799999986544322   22   23889999999999999999999999999999


Q ss_pred             ceEEcCCCChHHHHHHHHHHHHHHHHHHH
Q 022525          252 PVVISAPDSTVSRAYGEVAVNVVNRLQEL  280 (295)
Q Consensus       252 ~i~~~~~~s~~~~~~~~l~~~l~~~~~~~  280 (295)
                      |+... +.+.++.+|++++++|+..--+.
T Consensus       225 Pv~l~-~~~~a~~Ay~d~arRllGe~vp~  252 (272)
T COG2894         225 PVILD-DNSDAGKAYRDIARRLLGEEVPF  252 (272)
T ss_pred             CeEeC-CCchHHHHHHHHHHHHhCCCccc
Confidence            99975 56799999999999998754433

>PRK13236 nitrogenase reductase; Reviewed

Probab=100.00  E-value=1e-32  Score=238.51  Aligned_cols=235  Identities=21%  Similarity=0.219  Sum_probs=169.6

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC------------cccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM------------KMVP   96 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~------------~~~~   96 (295)
                      +.+++|+| ++||||||||+|+|||+.||+ +|+||++||+|+|.+++..+++..+..++.+..            ....
T Consensus         4 ~~~~~~~~-~GKGGVGKTt~a~NLA~~La~-~G~rVLliD~D~q~~~~~~l~~~~~~~tl~d~~~~~~~~~~~~l~~~i~   81 (296)
T PRK13236          4 ENIRQIAF-YGKGGIGKSTTSQNTLAAMAE-MGQRILIVGCDPKADSTRLMLHSKAQTTVLHLAAERGAVEDLELHEVML   81 (296)
T ss_pred             cCceEEEE-ECCCcCCHHHHHHHHHHHHHH-CCCcEEEEEccCCCCccchhccCCCCCCHHHHHHhcCCccCCCHHHhhe
Confidence            34699999 779999999999999999999 999999999999999999888876654443331            1112


Q ss_pred             cccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch-hhhhhccCceEEEeeCCCc
Q 022525           97 IENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL-TTTQTLQLSGALIVSTPQD  175 (295)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~-~~~~l~~ad~viiv~~~~~  175 (295)
                      ....+++++|.+.....   ....+......+..+.....++.||||+|||++....... ....+..||.+|+|+.|+.
T Consensus        82 ~~~~gv~llpa~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~yD~vliD~~~~~~~~~~~~~~~l~aAD~vIIvttpe~  158 (296)
T PRK13236         82 TGFRGVKCVESGGPEPG---VGCAGRGIITAINFLEENGAYQDLDFVSYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEM  158 (296)
T ss_pred             eCCCCeEEEECCCCCCC---CCCcceeehhhhHHHHhcCccccCCEEEEeccccceeccccccchhccCCEEEEecCcch
Confidence            33468888887632211   1111111112233333222236899999999754322111 1111458999999999999


Q ss_pred             chHHHHHHHHHHH----hcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCC
Q 022525          176 VALIDARKGITMF----SKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGV  251 (295)
Q Consensus       176 ~s~~~~~~~~~~l----~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~  251 (295)
                      .++.++.++++.+    +..+.++.|+|+||.+..      .    .....+++.+.++..++++||++..+.++...|+
T Consensus       159 ~sl~g~~~~~~~l~k~~~~~~l~i~gIv~Nr~~~~------~----~~~ile~l~~~~g~~vl~~Ip~~~~v~eA~~~~~  228 (296)
T PRK13236        159 MAMYAANNIARGILKYAHTGGVRLGGLICNSRNVD------R----EIELIETLAKRLNTQMIHFVPRDNIVQHAELRRM  228 (296)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCceeEEEEecCCCCc------c----hHHHHHHHHHHhCccceeeCCCChHHHHHHHcCC
Confidence            9998887554433    345678889999974210      0    0134678888899889999999999999999999


Q ss_pred             ceEEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          252 PVVISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       252 ~i~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      |++++.|+++++++|.+++++++.+++
T Consensus       229 Pv~~~~p~s~~a~~y~~La~ell~~~~  255 (296)
T PRK13236        229 TVNEYAPDSNQGNEYRALAKKIINNDN  255 (296)
T ss_pred             ChhhcCCCCHHHHHHHHHHHHHHhcCC
Confidence            999999999999999999999988764

>TIGR01287 nifH nitrogenase iron protein

Probab=100.00  E-value=1.3e-32  Score=236.63  Aligned_cols=234  Identities=23%  Similarity=0.246  Sum_probs=164.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC-----------cccccccC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM-----------KMVPIENY  100 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~-----------~~~~~~~~  100 (295)
                      ++|+|+ +||||||||+|+|||++||+ .|+||++||+|+|+++...+++..+..++.+..           ........
T Consensus         1 ~~ia~~-gKGGVGKTT~a~nLA~~La~-~G~~VlliD~D~q~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~   78 (275)
T TIGR01287         1 RQIAIY-GKGGIGKSTTTQNIAAALAE-MGKKVMIVGCDPKADSTRLLLGGKAQPTVLDVLREKGAEDLELEDVIKEGFG   78 (275)
T ss_pred             CeeEEe-CCCcCcHHHHHHHHHHHHHH-CCCeEEEEeCCCCCCccccccCCCCCCCHHHHHhhcCCCCCCHHHeeeeCCC
Confidence            478997 59999999999999999999 999999999999997766665644443332221           11122244


Q ss_pred             CceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch-hhhhhccCceEEEeeCCCcchHH
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL-TTTQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~-~~~~l~~ad~viiv~~~~~~s~~  179 (295)
                      ++++++.+...+.. ............+.+.+..+. ++||||||||++......+ ....+..||.+|+|+.|+..++.
T Consensus        79 ~l~~i~~~~~~~~~-~~~~~~~~~~~~~~~~l~~l~-~~yD~iiIDt~~~~~~~~~~~~~~~~aAD~viip~~p~~~sl~  156 (275)
T TIGR01287        79 GIRCVESGGPEPGV-GCAGRGVITAINLLEELGAYE-DDLDFVFYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEMMALY  156 (275)
T ss_pred             CEEEEeCCCCCccC-CCccchhhhHHHHHHHhhhhh-ccCCEEEEeccCcceecceeeccccccccEEEEEecchHHHHH
Confidence            67777665433221 111111111111222345566 7899999999765532111 11223478999999999999999


Q ss_pred             HHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEE
Q 022525          180 DARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVI  255 (295)
Q Consensus       180 ~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~  255 (295)
                      ++.++++.+.+    .+.++.++|.|+...          ....+..+++.+.++.++++.||++..+.+|...|+|+++
T Consensus       157 ~~~~l~~~i~~~~~~~~~~~~giv~n~~~~----------~~~~~~~e~l~~~~~~~vl~~Ip~~~~v~~A~~~g~pv~~  226 (275)
T TIGR01287       157 AANNICKGILKYAKSGGVRLGGLICNSRNV----------DDEKELIDEFAKKLGTQLIHFVPRSNIVQKAEIRKMTVIE  226 (275)
T ss_pred             HHHHHHHHHHHHHhcCCCeeeEEEEcCCCC----------chHHHHHHHHHHHhCCceEEECCCChHHHHHHHcCCceEE
Confidence            98887665432    356677788776321          0112346788888898888999999999999999999999


Q ss_pred             cCCCChHHHHHHHHHHHHHHHHHH
Q 022525          256 SAPDSTVSRAYGEVAVNVVNRLQE  279 (295)
Q Consensus       256 ~~~~s~~~~~~~~l~~~l~~~~~~  279 (295)
                      +.|.++++++|++++++++++.+.
T Consensus       227 ~~p~s~~a~~~~~la~ell~~~~~  250 (275)
T TIGR01287       227 YDPESEQANEYRELAKKIYENTEF  250 (275)
T ss_pred             eCCCCHHHHHHHHHHHHHHhcCCC
Confidence            999999999999999999887544

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=100.00  E-value=2.9e-33  Score=230.38  Aligned_cols=231  Identities=21%  Similarity=0.184  Sum_probs=172.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC--cccccc-------CcccccccCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK--PEVTKD-------MKMVPIENYG  101 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~--~~~~~~-------~~~~~~~~~~  101 (295)
                      ||+|+|.|.||||||||+++|||+.|++ .|++|++||+|||+ .+...||++..  .++...       ....-....+
T Consensus         1 M~~iai~s~kGGvG~TTltAnLA~aL~~-~G~~VlaID~dpqN-~Lrlhfg~~~~~~~G~a~a~l~~~~W~~~~~~~~~g   78 (243)
T PF06564_consen    1 MKVIAIVSPKGGVGKTTLTANLAWALAR-LGESVLAIDLDPQN-LLRLHFGLPLDDRDGWARALLDGADWQQAAYRYSDG   78 (243)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHHHHHH-CCCcEEEEeCCcHH-HHHHhcCCCCcccccHHHHHhCCCCHHHHhhccCCC
Confidence            6899999999999999999999999999 99999999999997 88889998753  333211       1111223467


Q ss_pred             ceeeccccccCCCCCCccCCchHHHHHHHHHHhcc-CCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHH
Q 022525          102 VKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD-WGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~-~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                      +.++|.|.+..........-......+.+.+..+. ...||+||||||++.+  .+....+..||.+++|+.|+..+...
T Consensus        79 ~~~LPfG~l~~~~~~~~~~l~~~~~~l~~~l~~l~~~~~~~~iliD~P~g~~--~~~~~al~~aD~vL~V~~~Da~s~~~  156 (243)
T PF06564_consen   79 VDFLPFGQLTEAEREAFEQLAQDPQWLARALAALKALGPYDWILIDTPPGPS--PYTRQALAAADLVLVVVNPDAASHAR  156 (243)
T ss_pred             CEEEcCCCCCHHHHHHHHHhhcCHHHHHHHHHHHhccCCCCEEEEeCCCCCc--HHHHHHHHhCCeEEEEeCCCHHHHHH
Confidence            88888775432221100000011345566666665 4789999999999988  67778888899999999999987644


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCC
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDS  260 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s  260 (295)
                      +.+   .   .-..-..+|+|+++..        +.++++...-..+.++..+.++|++|+.+.+|...+.|+.+++|.|
T Consensus       157 L~q---~---~l~~~~~~liNq~~~~--------s~l~~D~~~~~~~~l~~llp~~IHrDeAv~EAlA~~~~v~~yaP~S  222 (243)
T PF06564_consen  157 LHQ---R---ALPAGHRFLINQYDPA--------SQLQRDLLQVWRQSLGRLLPGVIHRDEAVAEALASGQPVGEYAPHS  222 (243)
T ss_pred             HHH---h---cccCCcEEEEeccCcc--------chHHHHHHHHHHHhhccccceeeecchHHHHHHhcCCCccccCccC
Confidence            332   1   1111247999999843        3444566666667777666679999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHH
Q 022525          261 TVSRAYGEVAVNVVNRLQE  279 (295)
Q Consensus       261 ~~~~~~~~l~~~l~~~~~~  279 (295)
                      .++++++.||.+++.+..+
T Consensus       223 ~Aa~D~~~LA~W~l~~~~~  241 (243)
T PF06564_consen  223 QAAEDIQTLANWCLSHLAG  241 (243)
T ss_pred             HHHHHHHHHHHHHHHHhhc
Confidence            9999999999999988754

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=100.00  E-value=7.3e-33  Score=248.27  Aligned_cols=235  Identities=17%  Similarity=0.143  Sum_probs=167.7

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccc------cc----------
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVT------KD----------   91 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~------~~----------   91 (295)
                      .+.+++|+|.|.||||||||+|+|||+.||+ .|+|||+||+|+|+ +++.++|..++....      +.          
T Consensus       118 ~~~~~vIav~n~KGGvGKTTta~nLA~~LA~-~G~rVLlIDlDpQ~-~lt~~~g~~~~~~~~~~~tl~~~l~~~~~~~~~  195 (405)
T PRK13869        118 SEHLQVIAVTNFKGGSGKTTTSAHLAQYLAL-QGYRVLAVDLDPQA-SLSALLGVLPETDVGANETLYAAIRYDDTRRPL  195 (405)
T ss_pred             CCCceEEEEEcCCCCCCHHHHHHHHHHHHHh-cCCceEEEcCCCCC-CHHHHcCCCccccccccccHHHHHhccccCCCH
Confidence            4457999999999999999999999999999 99999999999996 777888876532211      00          


Q ss_pred             -CcccccccCCceeeccccccCCCCC--------CccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc
Q 022525           92 -MKMVPIENYGVKCMSMGFLVPSSSP--------VVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL  162 (295)
Q Consensus        92 -~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~  162 (295)
                       ..+.+....+++++|.+........        ....+......+...++.+. +.||||||||||+++  ..+..++.
T Consensus       196 ~~~i~~t~~~~ldliPa~~~l~~~e~~~~~~~~~~~~~~~~~~~~L~~~L~~~~-~~yD~IiIDtpP~l~--~~t~~al~  272 (405)
T PRK13869        196 RDVIRPTYFDGLHLVPGNLELMEFEHTTPKALSDKGTRDGLFFTRVAQAFDEVA-DDYDVVVIDCPPQLG--FLTLSGLC  272 (405)
T ss_pred             HHheeccCCCCeeEecCCHHHHHHHHHhHHHHhhhcccchhHHHHHHHHHHHhh-ccCCEEEEECCCchh--HHHHHHHH
Confidence             0111233456777775431111000        00011112345778888887 899999999999998  67888899


Q ss_pred             cCceEEEeeCCCcchHHHHHHHHHH-------HhcC--C--CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCC
Q 022525          163 QLSGALIVSTPQDVALIDARKGITM-------FSKV--Q--VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGL  231 (295)
Q Consensus       163 ~ad~viiv~~~~~~s~~~~~~~~~~-------l~~~--~--~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  231 (295)
                      +||.+|+|+.|+..++.++..+++.       +++.  +  ...+++|+|+++.+..        .+.+..+.+.+.+|.
T Consensus       273 aAd~viiPv~p~~~~~~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~il~t~~~~~~~--------~~~~~~~~l~~~~~~  344 (405)
T PRK13869        273 AATSMVITVHPQMLDIASMSQFLLMTRDLLGVVKEAGGNLQYDFIRYLLTRYEPQDA--------PQTKVAALLRNMFED  344 (405)
T ss_pred             HcCEEEEecCCcHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcceeEEEEEeECCCCc--------HHHHHHHHHHHHhhh
Confidence            9999999999999998888877753       2222  2  3467899999984321        123557778888887


Q ss_pred             cEE-EeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHH
Q 022525          232 KVI-GEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVN  275 (295)
Q Consensus       232 ~~~-~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~  275 (295)
                      .++ ..||++..+.++...|.|++++.|.+...+.|.+..+.+.+
T Consensus       345 ~vl~~~I~~s~ai~~a~~~~~tv~e~~~~~~~~~~y~ra~~~~~~  389 (405)
T PRK13869        345 HVLTNPMVKSAAVSDAGLTKQTLYEIGRENLTRSTYDRAMESLDA  389 (405)
T ss_pred             hhccCcCcchHHHHhhHhcCCChhhcCCCcCCHHHHHHHHHHHHH
Confidence            666 58999999999999999999998875444444444433333

>PHA02518 ParA-like protein; Provisional

Probab=100.00  E-value=1.2e-32  Score=227.90  Aligned_cols=204  Identities=20%  Similarity=0.223  Sum_probs=155.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (295)
                      ++|+|+|.||||||||+|+|||++|++ +|++|++||+|+|++. ..+++......               +.++...  
T Consensus         1 ~ii~v~~~KGGvGKTT~a~~la~~la~-~g~~vlliD~D~q~~~-~~~~~~~~~~~---------------~~i~~~~--   61 (211)
T PHA02518          1 KIIAVLNQKGGAGKTTVATNLASWLHA-DGHKVLLVDLDPQGSS-TDWAEAREEGE---------------PLIPVVR--   61 (211)
T ss_pred             CEEEEEcCCCCCCHHHHHHHHHHHHHh-CCCeEEEEeCCCCCCh-HHHHHhcccCC---------------CCCchhh--
Confidence            589999999999999999999999999 9999999999999854 44443221100               1111100  


Q ss_pred             CCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC
Q 022525          112 PSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV  191 (295)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  191 (295)
                              .    ...+...+..+. ..||||||||||+.+  ......+..||.+|+|+.|+..++..+.++++.++..
T Consensus        62 --------~----~~~~~~~l~~~~-~~~d~viiD~p~~~~--~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~  126 (211)
T PHA02518         62 --------M----GKSIRADLPKVA-SGYDYVVVDGAPQDS--ELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKAR  126 (211)
T ss_pred             --------c----cHHHHHHHHHHh-ccCCEEEEeCCCCcc--HHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHH
Confidence                    0    123455556666 899999999999987  5677888899999999999999999888887766542


Q ss_pred             -----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEE-eecCCccccccccCCCceEEcCCCChHHHH
Q 022525          192 -----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIG-EIPIEMDIRKGSDDGVPVVISAPDSTVSRA  265 (295)
Q Consensus       192 -----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~-~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~  265 (295)
                           +.+..++|.|+++....        .. ....+..+.++.+++. .++++..+.++...|.+++++.|.++++++
T Consensus       127 ~~~~~~~~~~~iv~n~~~~~~~--------~~-~~~~~~l~~~~~~~~~~~i~~~~~~~~a~~~g~~v~~~~~~~~a~~~  197 (211)
T PHA02518        127 QEVTDGLPKFAFIISRAIKNTQ--------LY-REARKALAGYGLPILRNGTTQRVAYADAAEAGGSVLELPEDDKAAEE  197 (211)
T ss_pred             HhhCCCCceEEEEEeccCCcch--------HH-HHHHHHHHHcCchhhhchhhhHHHHHHHHhcCCceEecCCCchHHHH
Confidence                 45667788898753211        01 2355555666777775 566778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 022525          266 YGEVAVNVVNRLQ  278 (295)
Q Consensus       266 ~~~l~~~l~~~~~  278 (295)
                      |.+++++++++++
T Consensus       198 ~~~l~~ei~~~~~  210 (211)
T PHA02518        198 IIQLVKELFRGIS  210 (211)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998875

>PRK10037 cell division protein; Provisional

Probab=100.00  E-value=4.6e-33  Score=235.82  Aligned_cols=229  Identities=12%  Similarity=0.060  Sum_probs=156.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc--cccc-------cCcccccccCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP--EVTK-------DMKMVPIENYG  101 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~--~~~~-------~~~~~~~~~~~  101 (295)
                      |++|+|.|.||||||||+|+|||+.||+ +|+||++||+|+|+ +++..||.+...  ++.+       ..........+
T Consensus         1 ~~~iav~n~KGGvGKTT~a~nLA~~La~-~G~rVLlID~D~q~-~~s~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (250)
T PRK10037          1 MAILGLQGVRGGVGTTSITAALAWSLQM-LGENVLVIDACPDN-LLRLSFNVDFTHRQGWARALLDGQDWRDAGLRYTSQ   78 (250)
T ss_pred             CcEEEEecCCCCccHHHHHHHHHHHHHh-cCCcEEEEeCChhh-hHHHHhCCCccccchHHHHHhcCCCchhhhccccCC
Confidence            5799999999999999999999999999 99999999999996 666677765422  1111       00000111346


Q ss_pred             ceeeccccccCCCCCCccCCchHHHHHHHHHHhccC-CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHH
Q 022525          102 VKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDW-GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~-~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                      ++++|.+.+.................+...++.++. +.||||||||||+.+  ......+..||.+|+|+.|+..+.  
T Consensus        79 l~iip~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~yD~iiIDtpp~~~--~~~~~al~aaD~vlvpv~~~~~~~--  154 (250)
T PRK10037         79 LDLLPFGQLSIEEQENPQHWQTRLGDICSALQQLKASGRYQWILLDLPRGAS--PLTRQLLSLCDHSLAIVNVDANCH--  154 (250)
T ss_pred             eEEEcCCCCCHHHHHHHHHHHHhHHHHHHHHHHhcccCCCCEEEEECCCCcc--HHHHHHHHhCCEEEEEcCcCHHHH--
Confidence            666665421100000000000011235566666641 579999999999988  567788889999999999987653  


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHH---hCCcEEE-eecCCccccccccCCCceEEc
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAE---MGLKVIG-EIPIEMDIRKGSDDGVPVVIS  256 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~---~g~~~~~-~Ip~~~~~~~a~~~g~~i~~~  256 (295)
                          ++..+......+.+++|+++..            ....+++.+.   .+.+++. .||++..+.++...|+|++++
T Consensus       155 ----i~~~~~~~~~~~~i~~n~~~~~------------~~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~a~~~g~~v~~~  218 (250)
T PRK10037        155 ----IRLHQQALPAGAHILINDLRIG------------SQLQDDLYQLWLQSQRRLLPMLIHRDEAMAECLAAKQPLGEY  218 (250)
T ss_pred             ----HhhhccccCCCeEEEEecCCcc------------cHHHHHHHHHHHHhcccccCccccCchhHHHHHhcCCcchhc
Confidence                3333222222345788887511            1223333333   2556664 899999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHHHHHHH
Q 022525          257 APDSTVSRAYGEVAVNVVNRLQELA  281 (295)
Q Consensus       257 ~~~s~~~~~~~~l~~~l~~~~~~~~  281 (295)
                      .|+++++++|++++.++++.++..+
T Consensus       219 ~~~s~aa~~~~~l~~el~~~~~~~~  243 (250)
T PRK10037        219 RSDSLAAEEILTLANWCLLHYSGLK  243 (250)
T ss_pred             CCcCHHHHHHHHHHHHHHHhhccCC
Confidence            9999999999999999999887654

>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

Probab=100.00  E-value=8e-33  Score=232.23  Aligned_cols=236  Identities=27%  Similarity=0.365  Sum_probs=181.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcc-ccccC-------cccccc-cC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPE-VTKDM-------KMVPIE-NY  100 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~-~~~~~-------~~~~~~-~~  100 (295)
                      ++++|+|.|+||||||||+++||+..+++..|++|++||+|...++++.++|+.+... +.+..       +..-.. ..
T Consensus         1 ~~~~Iav~SgKGGvGKTtitanlga~~~~~~~k~V~~iDaD~g~~nL~~~~g~~~~~~~l~dvL~~~~~~~Di~~~~~~~   80 (262)
T COG0455           1 MTKVIAVVSGKGGVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESKPTTLHDVLAGEASIEDIIYETPQD   80 (262)
T ss_pred             CCEEEEEEecCCCccHHHHHHhHHHHHHhhCCCeEEEEecCCCCCcHHHHhCCCCCcccHHHHHhCCCCHhHeeeecCcC
Confidence            3699999999999999999999966666537888899999999999999999998555 44431       111111 26


Q ss_pred             CceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHH
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                      ++.++|.+......      .....+.+..++..+. ..|||||+|||+|++..  +...+..+|.+|+|++|+..++.+
T Consensus        81 gl~vipg~~~~~~~------~~~~~~~~~~~~~~l~-~~~D~iliD~~aGl~~~--~~~~~~~sd~~viVt~pe~~si~~  151 (262)
T COG0455          81 GLYVLPGGSGLEDL------AKLDPEDLEDVIKELE-ELYDYILIDTGAGLSRD--TLSFILSSDELVIVTTPEPTSITD  151 (262)
T ss_pred             CEEEeeCCCChHHH------hhcCHHHHHHHHHHHH-hcCCEEEEeCCCCccHH--HHHHHHhcCcEEEEeCCCcchHHH
Confidence            77777765322222      2233577888888888 88999999999999953  345566789999999999999999


Q ss_pred             HHHHHHHHhcCCCCeee--EEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCC
Q 022525          181 ARKGITMFSKVQVPILG--LVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAP  258 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~--~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~  258 (295)
                      +..+++++.+.+.+..+  +|+|++......      ........+...  ..+.+..+|+++.+.++...|.|+...+|
T Consensus       152 A~~~i~~~~~~~~~~~~~~vV~N~v~~~~e~------~~~~~~~~~~~~--~~~~~~~i~~~~~v~~a~~~g~p~~~~~p  223 (262)
T COG0455         152 AYKTIKILSKLGLDLLGRRVVLNRVRSTKEG------VDVAALLIQVVK--QVPVLQVIPFDPEVRRALAEGKPIVLYSP  223 (262)
T ss_pred             HHHHHHHHHHcCCccccceEEEEecccccch------hHHHHHHHHHHH--hCCceeEeccChHHHHHhhcCCcEEEeCC
Confidence            99999999999988777  999999622110      000111233333  33477899999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHH
Q 022525          259 DSTVSRAYGEVAVNVVNRLQELAK  282 (295)
Q Consensus       259 ~s~~~~~~~~l~~~l~~~~~~~~~  282 (295)
                      ++++++++.+++..+.+.......
T Consensus       224 ~s~as~ai~~lA~~l~~~~~~~~~  247 (262)
T COG0455         224 NSKASQAIKELAAKLAGLPEPKAP  247 (262)
T ss_pred             CCHHHHHHHHHHHHHhcccccCCc
Confidence            999999999999999997655543

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=100.00  E-value=8.1e-33  Score=236.43  Aligned_cols=233  Identities=22%  Similarity=0.266  Sum_probs=168.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc---------CcccccccCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD---------MKMVPIENYG  101 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~---------~~~~~~~~~~  101 (295)
                      |++|+|. +||||||||+|+|||++||+ .| |||+||+|+|++.+..+++... .++.+.         .........+
T Consensus         2 ~~~iav~-~KGGvGKTT~a~nLA~~La~-~G-rVLliD~Dpq~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   77 (264)
T PRK13231          2 MKKIAIY-GKGGIGKSTTVSNMAAAYSN-DH-RVLVIGCDPKADTTRTLCGKRI-PTVLDTLKDNRKPELEDIIHEGFNG   77 (264)
T ss_pred             ceEEEEE-CCCCCcHHHHHHHHhcccCC-CC-EEEEEeEccCcccchhhhcCCc-cHHHHHHhhcCCCChhHhheeCCCC
Confidence            6899999 69999999999999999999 99 9999999999866655555432 222111         1111222345


Q ss_pred             ceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh-hhhhccCceEEEeeCCCcchHHH
Q 022525          102 VKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT-TTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~-~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                      +.+++.+..... .............+.+.+..+. +.||||||||++.+....+. ...+..||.+|+|+.|+..++.+
T Consensus        78 l~~i~~~~~~~~-~~~~~~~~~~~~~~~~~l~~l~-~~yD~ViIDt~~~~~~~~~~~~~~~~aaD~vlip~~p~~~si~~  155 (264)
T PRK13231         78 ILCVESGGPEPG-VGCAGRGVIVAMNLLENLGVFD-EDIDVVIYDVLGDVVCGGFSVPLREDYADEVYIVTSGEYMSLYA  155 (264)
T ss_pred             eEEEEcCCCCCC-CCCcCceeeehhhhHHhhcccc-CCCCEEEEecCCCceEccccccccccccceeEEEecCchhHHHH
Confidence            666665532221 1111111111123445556666 88999999998755321111 11124789999999999999999


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCC
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDS  260 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s  260 (295)
                      +.++++.++..+....++|.|+++..       .   .....+++.+.++..+++.||++..+.++...|+|++++.|.+
T Consensus       156 ~~~~~~~i~~~~~~~~~vv~~~~~~~-------~---~~~~~~~l~~~~~~~vl~~I~~~~~v~~a~~~g~~v~~~~~~~  225 (264)
T PRK13231        156 ANNIARGIKKLKGKLGGIICNCRGID-------N---EVEIVSEFASRIGSRIIGVIPRSNLVQESELDAKTVVETFPES  225 (264)
T ss_pred             HHHHHHHHHHcCCcceEEEEcCCCCc-------c---HHHHHHHHHHHhCCCeEEeCCCCHHHHHHHHcCCceeEeCCCC
Confidence            99999998877666667888875421       0   2345788888899888899999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHH
Q 022525          261 TVSRAYGEVAVNVVNRLQE  279 (295)
Q Consensus       261 ~~~~~~~~l~~~l~~~~~~  279 (295)
                      +++++|.+++++|+++++.
T Consensus       226 ~aa~~~~~la~el~~~~~~  244 (264)
T PRK13231        226 EQASVYRKLANNIMNNTEF  244 (264)
T ss_pred             hHHHHHHHHHHHHHhcCCC
Confidence            9999999999999998753

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=100.00  E-value=3.7e-32  Score=234.93  Aligned_cols=230  Identities=23%  Similarity=0.227  Sum_probs=166.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC------------cccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM------------KMVPIE   98 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~------------~~~~~~   98 (295)
                      +++|+|. +||||||||+++|||+.||+ .|+|||+||+|+|.+++..+++.....++.+..            ......
T Consensus         4 ~~~iai~-~KGGvGKTt~~~nLa~~la~-~g~kVLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~   81 (295)
T PRK13234          4 LRQIAFY-GKGGIGKSTTSQNTLAALVE-MGQKILIVGCDPKADSTRLILNAKAQDTVLSLAAEAGSVEDLELEDVMKIG   81 (295)
T ss_pred             ceEEEEE-CCCCccHHHHHHHHHHHHHH-CCCeEEEEecccccccccccccCCCCCcHHHHHHhcCCcccccHHHHheec
Confidence            6999997 99999999999999999999 999999999999998887666654433322211            111223


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHH-HHHHhcc-CCCccEEEEcCCCCCCccchhhhhh--ccCceEEEeeCCC
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALR-KMSREVD-WGNLDILVIDMPPGTGDAQLTTTQT--LQLSGALIVSTPQ  174 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~~l~-~~~yD~iiiD~~~~~~~~~~~~~~l--~~ad~viiv~~~~  174 (295)
                      ..+++++|.+..... .....++    ..++ ..++.+. .+.||||||||++++....+ ...+  ..||.+|+|+.++
T Consensus        82 ~~gl~lipa~~~~~~-~~~~~~~----~~l~~~~l~~~~~~~~yD~IlID~~~~~~~nal-~~~~~~~aAD~vIIPv~pe  155 (295)
T PRK13234         82 YKGIKCVESGGPEPG-VGCAGRG----VITSINFLEENGAYDDVDYVSYDVLGDVVCGGF-AMPIRENKAQEIYIVMSGE  155 (295)
T ss_pred             CCCeEEEECCCCCCC-CCCCcce----eeeHHHHHHHcCCCccCCEEEEEcCCCceECCC-ccccccccCceEEEecCcc
Confidence            467888877542221 1111111    1222 2444432 16899999999654332111 1111  2799999999999


Q ss_pred             cchHHHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCC
Q 022525          175 DVALIDARKGITMFSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDG  250 (295)
Q Consensus       175 ~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g  250 (295)
                      .+++.++.++++.+.+.    +++..|+|+|+...       .   ......+++.+.++.++++.||++..+.++...|
T Consensus       156 ~~Sl~gl~~l~~~i~~~~~~~~l~~~gIV~N~~rt-------~---~~~~~~e~l~e~~g~~ll~~Ip~d~~V~eA~~~g  225 (295)
T PRK13234        156 MMALYAANNIAKGILKYANSGGVRLGGLICNERQT-------D---RELELAEALAARLGSKLIHFVPRDNIVQHAELRR  225 (295)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCeEEEEEecCCCC-------c---hHHHHHHHHHHHhCCceEEECCCchHHHHHHHcC
Confidence            99999999888777643    46678999996431       1   1124567777888988889999999999999999


Q ss_pred             CceEEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          251 VPVVISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       251 ~~i~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      +|++++.|.++++++|.+++++++++.+
T Consensus       226 ~pv~~~~p~s~aa~~y~~La~ell~~~g  253 (295)
T PRK13234        226 MTVIEYAPDSKQAGEYRALAEKIHANSG  253 (295)
T ss_pred             CceEEECCCCHHHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999988754

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=100.00  E-value=3.5e-32  Score=234.19  Aligned_cols=236  Identities=23%  Similarity=0.240  Sum_probs=160.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC-----------ccccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM-----------KMVPIEN   99 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~-----------~~~~~~~   99 (295)
                      |++|+|+ +||||||||+|+|||++||+ +|+|||+||+|+|++....+.+ ....++.+..           .......
T Consensus         1 ~~~i~~~-gKGGVGKTT~a~nLA~~La~-~G~rVLliD~Dpq~n~t~~l~~-~~~~~l~d~~~~~~~~~~~~~~~i~~~~   77 (279)
T PRK13230          1 MRKFCFY-GKGGIGKSTTVCNIAAALAE-SGKKVLVVGCDPKADCTRNLVG-EKIPTVLDVLREKGIDNLGLEDIIYEGF   77 (279)
T ss_pred             CcEEEEE-CCCCCcHHHHHHHHHHHHHh-CCCEEEEEeeCCcccccccccC-ccCCCHHHHHHhcCCCCCCHHHheeeCC
Confidence            5899999 69999999999999999999 9999999999999866554433 2222222111           0111123


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc-hhhhhhccCceEEEeeCCCcchH
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ-LTTTQTLQLSGALIVSTPQDVAL  178 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~-~~~~~l~~ad~viiv~~~~~~s~  178 (295)
                      .+++++|.+...... ............+...+..+....||||||||++++.... .....+..||.+|+|+.|+..++
T Consensus        78 ~~l~lipa~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~yD~viID~~~~~~~~~l~~~~~~~aAD~vlIp~~p~~~si  156 (279)
T PRK13230         78 NGIYCVESGGPEPGY-GCAGRGVITAIDLLKKLGVFEELGPDVVIYDILGDVVCGGFAMPLQKGLADDVYIVTTCDPMAI  156 (279)
T ss_pred             CCcEEEECCCCCCCC-CcCCcchhhHHHHHHHcCcccccCCCEEEEecCCccccCCccccccccccceEEEeccchHHHH
Confidence            567777765332211 1111111111111222223322479999999987553211 22223456999999999999999


Q ss_pred             HHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceE
Q 022525          179 IDARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVV  254 (295)
Q Consensus       179 ~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~  254 (295)
                      .++..+++.+..    .+..+.++|.|+-.        .  .......+++++.++.++++.||++..+.++...|+|+.
T Consensus       157 ~~~~~ll~~i~~~~~~~~~~i~gIv~n~r~--------~--~~~~~~~e~l~~~~g~~vl~~Ip~~~~v~eA~~~g~pv~  226 (279)
T PRK13230        157 YAANNICKGIKRFAKRGKSALGGIIYNGRS--------V--IDAPDIVEEFAKKIGTNVIGKIPMSNIITEAEIYGKTVI  226 (279)
T ss_pred             HHHHHHHHHHHHHhhcCCCcceEEEEeccC--------C--CchhHHHHHHHHHhCCcEEEECCCChHHHHHHHcCCeEE
Confidence            999877776643    35556666654211        0  001245788888999999999999999999999999999


Q ss_pred             EcCCCChHHHHHHHHHHHHHHHHHHH
Q 022525          255 ISAPDSTVSRAYGEVAVNVVNRLQEL  280 (295)
Q Consensus       255 ~~~~~s~~~~~~~~l~~~l~~~~~~~  280 (295)
                      ++.|.++++++|.+++++++++.+.+
T Consensus       227 ~~~p~~~~a~~y~~La~ell~~~~~~  252 (279)
T PRK13230        227 EYAPDSEISNIFRELAEAIYENNTGT  252 (279)
T ss_pred             EeCCCCHHHHHHHHHHHHHHhcCCCC
Confidence            99999999999999999999875533

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=100.00  E-value=2.2e-32  Score=234.16  Aligned_cols=225  Identities=22%  Similarity=0.206  Sum_probs=159.2

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc-------------Cccccccc
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD-------------MKMVPIEN   99 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~-------------~~~~~~~~   99 (295)
                      +|+|. +||||||||+|+|||++||+ +|+|||+||+|+|++ +...++.....++.+.             ........
T Consensus         2 ~i~v~-gKGGvGKTT~a~nLA~~la~-~G~rvlliD~Dpq~~-~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~   78 (267)
T cd02032           2 VLAVY-GKGGIGKSTTSSNLSVALAK-RGKKVLQIGCDPKHD-STFTLTGFLIPTVIDILEEVDFHYEELWPEDVIYEGY   78 (267)
T ss_pred             EEEEe-cCCCCCHHHHHHHHHHHHHH-CCCcEEEEecCCCCC-cceeccCCCCCCHHHHHHhccccccCCChhheEEECC
Confidence            58888 59999999999999999999 999999999999974 4445543222222211             11111223


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHh--ccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSRE--VDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s  177 (295)
                      .++++++.+...... ....  ...... ..+++.  +. ++||||||||++++... .....+..||.+|+|+.|+..+
T Consensus        79 ~~l~~i~~~~~~~~~-~~~~--~~~~~~-~~~~~~~~~~-~~yD~vIIDt~g~~~~~-~~~~al~~aD~vlip~~p~~~~  152 (267)
T cd02032          79 GGVDCVEAGGPPAGA-GCGG--YVVGET-VKLLKELNLF-EEYDVILFDVLGDVVCG-GFAAPLNYADYALIVTDNDFDS  152 (267)
T ss_pred             CCcEEEEcCCCCCCc-cccc--hHHHHH-HHHHHHcccc-ccCCEEEEeCCCCcccc-cchhhhhhcCEEEEEecCCccc
Confidence            577777765422111 1111  001111 122222  34 68999999998876532 2234467899999999999999


Q ss_pred             HHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCce
Q 022525          178 LIDARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPV  253 (295)
Q Consensus       178 ~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i  253 (295)
                      +..+.++++.++.    .+++..++|+|+++.             ....+++.+.++.++++.||++..+.++...|.|+
T Consensus       153 l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~-------------~~~i~~~~~~~~~~vl~~Ip~~~~v~~A~~~G~~v  219 (267)
T cd02032         153 IFAANRIAAAVREKAKTYKVRLAGLIANRTDK-------------TDLIDKFVEAVGMPVLAVLPLIEDIRRSRVKGKTL  219 (267)
T ss_pred             HHHHHHHHHHHHHHhhccCCceEEEEEeCCCH-------------HHHHHHHHHhCCCCEEEEecCCccccHHHHcCCCH
Confidence            9998888876653    356778899999862             12356778888999999999999999999999999


Q ss_pred             EEcCCCChH----HHHHHHHHHHHHHHHHH
Q 022525          254 VISAPDSTV----SRAYGEVAVNVVNRLQE  279 (295)
Q Consensus       254 ~~~~~~s~~----~~~~~~l~~~l~~~~~~  279 (295)
                      +++.|.++.    +++|.+|++++++..+.
T Consensus       220 ~e~~~~~~~a~e~a~~y~~La~~il~~~~~  249 (267)
T cd02032         220 FEMDESDEELAYRCDYYLLIADQLLAGPEG  249 (267)
T ss_pred             HHhCcccccccHHHHHHHHHHHHHHhcCCC
Confidence            999887765    57799999988765443

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=100.00  E-value=3.8e-32  Score=232.80  Aligned_cols=227  Identities=22%  Similarity=0.249  Sum_probs=159.1

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC-------------ccccccc
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM-------------KMVPIEN   99 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~-------------~~~~~~~   99 (295)
                      +|+|. +||||||||+|+|||++||+ +|+|||+||+|+|++. +..++.....++.+..             .......
T Consensus         2 ~i~~~-gKGGVGKTT~~~nLA~~La~-~g~rVLliD~D~q~~~-~~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~   78 (268)
T TIGR01281         2 ILAVY-GKGGIGKSTTSSNLSVAFAK-LGKRVLQIGCDPKHDS-TFTLTGRLIPTVIDVLQAVNYHYEDVRPEDVIYTGY   78 (268)
T ss_pred             EEEEE-cCCcCcHHHHHHHHHHHHHh-CCCeEEEEecCccccc-cceecCCCCCcHHHHHHhccccccCCCHHHeeEeCC
Confidence            58888 79999999999999999999 9999999999999844 4455422222222211             1111223


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~  179 (295)
                      .++++++.+...................++. + .+. +.||||||||++++..... ...+..||.+++|+.++..++.
T Consensus        79 ~~l~~i~~~~~~~~~~~~~~~~~~~~~~l~~-~-~~~-~~yD~ViID~~~~~~~~~~-~~~l~aAD~vlip~~~~~~sl~  154 (268)
T TIGR01281        79 GGVDCVEAGGPPAGSGCGGYVVGETVKLLKE-H-HIL-DDYDVILFDVLGDVVCGGF-ATPLQYADYALVVAANDFDALF  154 (268)
T ss_pred             CCeEEEecCCCCCCCcccceehhhhHHHhhh-c-ccc-ccCCEEEEecCCccccCcc-ccchhhcCEEEEEecCchhHHH
Confidence            5677776653222111000000001122222 1 234 6899999999877653222 2456789999999999999999


Q ss_pred             HHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEE
Q 022525          180 DARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVI  255 (295)
Q Consensus       180 ~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~  255 (295)
                      ++.++++.+..    .+++..++|+|+++.+             ...+++.+.++.++++.||++..+.++...|.|+++
T Consensus       155 ~~~~l~~~i~~~~~~~~l~~~gIV~N~~~~~-------------~~~~~~~~~~~~~vl~~I~~~~~v~~A~~~G~pV~~  221 (268)
T TIGR01281       155 AANRIAASVQEKAKNYDVRLAGIIGNRSDAT-------------DLIERFNERVGMPVLGVVPDLEVIRRSRVKGKTLFE  221 (268)
T ss_pred             HHHHHHHHHHHHhhcCCCceEEEEEeCCChH-------------HHHHHHHHHcCCCEEEEcCCChHHHHHHHCCCCHHH
Confidence            98888876654    3567789999998732             346677778899999999999999999999999999


Q ss_pred             cCCCCh----HHHHHHHHHHHHHHHHHH
Q 022525          256 SAPDST----VSRAYGEVAVNVVNRLQE  279 (295)
Q Consensus       256 ~~~~s~----~~~~~~~l~~~l~~~~~~  279 (295)
                      +.|.++    .+++|++++++++++.+.
T Consensus       222 ~~~~~~~~~~~a~~~~~la~el~~~~~~  249 (268)
T TIGR01281       222 MEESGPELAAVTQEYLRMAEYLLAGPEG  249 (268)
T ss_pred             hCcccccchHHHHHHHHHHHHHHhcCCC
Confidence            987653    678899999999876443

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>PHA02519 plasmid partition protein SopA; Reviewed

Probab=99.98  E-value=2.7e-31  Score=236.14  Aligned_cols=258  Identities=19%  Similarity=0.140  Sum_probs=175.7

Q ss_pred             chhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe-CCCCCCccccccc
Q 022525            4 SFRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA-DVYGPSVPMMMKI   82 (295)
Q Consensus         4 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~-D~~~~~~~~~~g~   82 (295)
                      .|++.+-.. +|..+..... .+....+++|+|+|.||||||||+|+|||+.||. +|+|||+||+ |+|+ +++.++|.
T Consensus        81 ~ytl~eI~~-lr~~~~~~~~-r~~~~~~~vIav~n~KGGVGKTTta~nLA~~LA~-~G~rVLlIDl~DpQ~-nlt~~~g~  156 (387)
T PHA02519         81 GYTIDQISH-MRDHFGNPNQ-RPDDKNPVVLAVMSHKGGVYKTSSAVHTAQWLAL-QGHRVLLIEGNDPQG-TASMYHGY  156 (387)
T ss_pred             eEcHHHHHH-HHHHhhcccc-CcCCCCceEEEEecCCCCCcHHHHHHHHHHHHHh-CCCcEEEEeCCCCCC-CcccccCc
Confidence            566655544 3433332111 1233447999999999999999999999999999 9999999996 9998 56678887


Q ss_pred             CCCcccccc---------------CcccccccCCceeeccccccCCC-------CCCccCCchHHHHHHHHHHhccCCCc
Q 022525           83 DQKPEVTKD---------------MKMVPIENYGVKCMSMGFLVPSS-------SPVVWRGPMVMSALRKMSREVDWGNL  140 (295)
Q Consensus        83 ~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~l~~~~y  140 (295)
                      .++..+.+.               ..+.+....+++++|.+......       .............+...++.+. +.|
T Consensus       157 ~~~~~~~~~~tl~~~~~~~~~~~~~~i~~t~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~L~~l~-~~Y  235 (387)
T PHA02519        157 VPDLHIHADDTLLPFYLGERDNAEYAIKPTCWPGLDIIPSCLALHRIETDLMQYHDAGKLPHPPHLMLRAAIESVW-DNY  235 (387)
T ss_pred             CccccccccccHHHHHhCCCcchHhheecCCCCCEEEEECChHHHHHHHHHHHhhhccccccCHHHHHHHHHHHhh-ccC
Confidence            653221110               11122334667777765311100       0000000012345777788887 899


Q ss_pred             cEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhc-------CC-CCeeeEEeccccCCCCCCCC
Q 022525          141 DILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSK-------VQ-VPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       141 D~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~-------~~-~~~~~~ViN~~~~~~~~~~~  212 (295)
                      |||||||||.++  ..+.+++.+||.+|+|+.++..++.++..+++.+..       .+ .+.+.+++|+++.+..    
T Consensus       236 D~IlID~pPslg--~lt~nAL~AAd~vliPv~~~~~s~~s~~~~~~~i~~~~~~~~~~~~~~~l~il~t~~~~~~~----  309 (387)
T PHA02519        236 DIIVIDSAPNLG--TGTINVVCAADVIVVATPAELFDYVSVLQFFTMLLDLLATVDLGGFEPVVRLLLTKYSLTVG----  309 (387)
T ss_pred             CEEEEECCCCcc--HHHHHHHHHhCEEEEecCCcHHHHHHHHHHHHHHHHHHHHHHhcccCCCeEEEEeeECCCCc----
Confidence            999999999998  678889999999999999999998887766655522       12 2345689999984311    


Q ss_pred             CccccCCchhhHHHHHhCCcEEE-eecCCccccccccCCCceEEcCCCC--------hHHHHHHHHHHHHHH
Q 022525          213 PSFIFGKGGTHRTAAEMGLKVIG-EIPIEMDIRKGSDDGVPVVISAPDS--------TVSRAYGEVAVNVVN  275 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~~~-~Ip~~~~~~~a~~~g~~i~~~~~~s--------~~~~~~~~l~~~l~~  275 (295)
                         ...+...+.+.+.+|..++. .||.+..+.+|...+++++++.+.+        .+.+.+..++.+|++
T Consensus       310 ---~~~~~i~~~l~~~~g~~vl~~~I~~s~~i~~a~~~~~ti~e~~~~~~~~~~~~~r~~~~~~~~~~ei~~  378 (387)
T PHA02519        310 ---NQSRWMEEQIRNTWGSMVLRQVVRVTDEVGKGQIKMRTVFEQAANQRSTLNAWRNAVAIWEPVCAEIFN  378 (387)
T ss_pred             ---hHHHHHHHHHHHHhccccccccCcCcchHhhchhcCCChhhCccccCCcHHHHHHHHHHHHHHHHHHHH
Confidence               11122456788888887764 8999999999999999999987654        245566666666666

>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.98  E-value=9.5e-32  Score=229.29  Aligned_cols=238  Identities=24%  Similarity=0.324  Sum_probs=170.8

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC--cccccc----------Cccccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK--PEVTKD----------MKMVPI   97 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~--~~~~~~----------~~~~~~   97 (295)
                      ++++|+|+|.||||||||+|+|||.+||...|+|||+||+|||+ +++.++|....  ....+.          ..... 
T Consensus         1 ~~~iI~v~n~KGGvGKTT~a~nLa~~La~~~~~kVLliDlDpQ~-s~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   78 (259)
T COG1192           1 MMKIIAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLIDLDPQG-SLTSWLGLRPDLEGDLYNLLSGLKERPDILDYTV-   78 (259)
T ss_pred             CCEEEEEEecCCCccHHHHHHHHHHHHHHhcCCcEEEEeCCCcc-hhhHhcCCCcccchhHHHHHhcccccccchhccc-
Confidence            47999999999999999999999999995267999999999995 77788888765  000000          00001 


Q ss_pred             ccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch
Q 022525           98 ENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s  177 (295)
                      ...+++++|.....................++.+++.+. ++||||||||||+++  ..+..++.++|.+++|+.++..+
T Consensus        79 ~~~~ld~ips~~~l~~~~~~~~~~~~~~~~l~~~~~~~~-~~yD~iiID~pp~l~--~l~~nal~asd~vlIP~~~~~~~  155 (259)
T COG1192          79 VIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVK-DDYDYIIIDTPPSLG--VLTLNALAAADHVLIPVQPEFLD  155 (259)
T ss_pred             CCCCceEecCChHHHhHHHHHHhhhhHHHHHHHHhhhhc-cCCCEEEECCCCchh--HHHHHHHHHcCeeEEecCchHHH
Confidence            223444544332111100000000112234455555555 799999999999997  77888899999999999999999


Q ss_pred             HHHHHHHHHHHhcC---C---CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE-EeecCCccccccccCC
Q 022525          178 LIDARKGITMFSKV---Q---VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI-GEIPIEMDIRKGSDDG  250 (295)
Q Consensus       178 ~~~~~~~~~~l~~~---~---~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-~~Ip~~~~~~~a~~~g  250 (295)
                      +.++..+++.+...   +   ....++++|+++.....        ..+..+...+.++.+++ ..||.+..+.++...|
T Consensus       156 ~~~~~~~~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~a~~~g  227 (259)
T COG1192         156 LEGLEQLLNTLEDLLKLRRNKLIVVGILITRFDSRTKL--------ADEVLQELKQLLGDPVLKTKIPRRVAYREAAAEG  227 (259)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCcceEEEeeceEcCCcch--------HHHHHHHHHHHhccccccccCcccccHHhHHHcC
Confidence            99888877766542   1   25678999999843222        23446666666665554 5999999999999999


Q ss_pred             CceEEcCCCChHHHHHHHHHHHHHHHHHHH
Q 022525          251 VPVVISAPDSTVSRAYGEVAVNVVNRLQEL  280 (295)
Q Consensus       251 ~~i~~~~~~s~~~~~~~~l~~~l~~~~~~~  280 (295)
                      .|+..+.+.++.+++|.++++++++++...
T Consensus       228 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  257 (259)
T COG1192         228 KPLYEYDPKSKAAEEYYELAKELLEELLKL  257 (259)
T ss_pred             CCceecCCcchHHHHHHHHHHHHHHhhhcc
Confidence            999999999999999999999999987653

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=99.98  E-value=1.6e-31  Score=238.21  Aligned_cols=239  Identities=19%  Similarity=0.135  Sum_probs=167.2

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe-CCCCCCcccccccCCCcccc------c--------c
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA-DVYGPSVPMMMKIDQKPEVT------K--------D   91 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~-D~~~~~~~~~~g~~~~~~~~------~--------~   91 (295)
                      ...++++|+|.|.||||||||+|+|||+.||+ +|+|||+||+ |+|+ +++.++|..+.....      +        .
T Consensus       102 ~~~~~~vIai~n~KGGVGKTT~a~nLA~~LA~-~G~rVLlID~~DpQ~-nlt~~~g~~~~~~~~~~~~l~~~~~~~~~~~  179 (388)
T PRK13705        102 EDVFPPVIGVAAHKGGVYKTSVSVHLAQDLAL-KGLRVLLVEGNDPQG-TASMYHGWVPDLHIHAEDTLLPFYLGEKDDA  179 (388)
T ss_pred             CCCCCeEEEEECCCCCchHHHHHHHHHHHHHh-cCCCeEEEcCCCCCC-chhhhcCcCccccccccccHHHHHhcCCCch
Confidence            34568999999999999999999999999999 9999999996 9998 556777765421111      0        0


Q ss_pred             -CcccccccCCceeeccccccCCC-------CCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhcc
Q 022525           92 -MKMVPIENYGVKCMSMGFLVPSS-------SPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQ  163 (295)
Q Consensus        92 -~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~  163 (295)
                       ..+.+....+++++|.+......       .............+...++.+. +.||||||||||+++  ..+.+++.+
T Consensus       180 ~~~i~~t~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~l~~l~-~~YD~IiIDtpP~l~--~~t~nal~A  256 (388)
T PRK13705        180 TYAIKPTCWPGLDIIPSCLALHRIETELMGKFDEGKLPTDPHLMLRLAIETVA-HDYDVIVIDSAPNLG--IGTINVVCA  256 (388)
T ss_pred             hhheecCCCCCEEEEeCCHHHHHHHHHHHHhhhcccccccHHHHHHHHHHhhh-ccCCEEEEECCCchh--HHHHHHHHH
Confidence             11123334567777764211100       0000000012345677778787 899999999999998  678888999


Q ss_pred             CceEEEeeCCCcchHHHHHHHHHHHhcC-------C-CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEE
Q 022525          164 LSGALIVSTPQDVALIDARKGITMFSKV-------Q-VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIG  235 (295)
Q Consensus       164 ad~viiv~~~~~~s~~~~~~~~~~l~~~-------~-~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  235 (295)
                      ||.+|+|+.++..++.++..+++.+...       + .+.+.+++|+++.+..       .......+.+.+.+|..++.
T Consensus       257 aD~viiP~~~~~~s~~g~~~~~~~i~~~~~~~~~~~~~~~l~il~t~~~~~~~-------~~~~~~~~~l~~~~~~~vl~  329 (388)
T PRK13705        257 ADVLIVPTPAELFDYTSALQFFDMLRDLLKNVDLKGFEPDVRILLTKYSNSNG-------SQSPWMEEQIRDAWGSMVLK  329 (388)
T ss_pred             cCEEEEecCCcHHHHHHHHHHHHHHHHHHHHHhhccCCCCeEEEEEEecCCCc-------hHHHHHHHHHHHHhcccccc
Confidence            9999999999999998887776655431       1 2335689999974211       11112346677778876664


Q ss_pred             -eecCCccccccccCCCceEEcCCCC--------hHHHHHHHHHHHHHHHH
Q 022525          236 -EIPIEMDIRKGSDDGVPVVISAPDS--------TVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       236 -~Ip~~~~~~~a~~~g~~i~~~~~~s--------~~~~~~~~l~~~l~~~~  277 (295)
                       .||++..+.++...+++++++.+..        .+.+.+..++++|++++
T Consensus       330 ~~I~~s~~i~~a~~~~~ti~e~~~~~~~~~~~~~r~~~~~~~~~~~i~~~~  380 (388)
T PRK13705        330 NVVRETDEVGKGQIRMRTVFEQAIDQRSSTGAWRNALSIWEPVCNEIFDRL  380 (388)
T ss_pred             ccCcccchHhhhhhcCCCceeEccccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence             9999999999999999999987633        24556667777776644

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=99.97  E-value=2.2e-31  Score=238.78  Aligned_cols=237  Identities=18%  Similarity=0.141  Sum_probs=166.0

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc----------------
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD----------------   91 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~----------------   91 (295)
                      ...+++|+|+|.||||||||+|+|||++||+ .|+||++||+|+|+ +++.++|..+...+.+.                
T Consensus       101 g~~~~vI~v~n~KGGvGKTT~a~nLA~~La~-~G~rVLlID~DpQ~-~ls~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l  178 (387)
T TIGR03453       101 GEHLQVIAVTNFKGGSGKTTTAAHLAQYLAL-RGYRVLAIDLDPQA-SLSALFGYQPEFDVGENETLYGAIRYDDERRPL  178 (387)
T ss_pred             CCCceEEEEEccCCCcCHHHHHHHHHHHHHh-cCCCEEEEecCCCC-CHHHHcCCCcccccccCccHHHHHhccccccCH
Confidence            3457999999999999999999999999999 99999999999986 77888887553221110                


Q ss_pred             -CcccccccCCceeeccccccCCCC--------CCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc
Q 022525           92 -MKMVPIENYGVKCMSMGFLVPSSS--------PVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL  162 (295)
Q Consensus        92 -~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~  162 (295)
                       ..+.+....+++++|.+.......        .....+......+...++.+. +.||||||||||+++  ..+...+.
T Consensus       179 ~~~i~~~~~~~l~lip~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~IiiD~pp~~~--~~~~~al~  255 (387)
T TIGR03453       179 SEIIRKTYFPGLDLVPGNLELMEFEHETPRALSRGQGGDTIFFARVGEALAEVE-DDYDVVVIDCPPQLG--FLTLSALC  255 (387)
T ss_pred             HhhcccCCCCCeEEEeCCHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHH-hcCCEEEEeCCccHh--HHHHHHHH
Confidence             011122335667776542110000        000001112245777888887 899999999999998  67788899


Q ss_pred             cCceEEEeeCCCcchHHHHHHHHHH-------HhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCC
Q 022525          163 QLSGALIVSTPQDVALIDARKGITM-------FSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGL  231 (295)
Q Consensus       163 ~ad~viiv~~~~~~s~~~~~~~~~~-------l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  231 (295)
                      .||.+|+|+.|+..++..+..+++.       ++..    +...+++|+|+++.+..        ...+..+.+.+.+|.
T Consensus       256 aad~viipv~p~~~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~~~~~~~~--------~~~~~~~~l~~~~~~  327 (387)
T TIGR03453       256 AATGVLITVHPQMLDVMSMSQFLLMTGDLLGVVREAGGNLSYDFMRYLVTRYEPNDG--------PQAQMVAFLRSLFGD  327 (387)
T ss_pred             HcCeeEEcCCCchhhHHHHHHHHHHHHHHHHHHHHhcCCCCCceeEEEEeeECCCCc--------cHHHHHHHHHHHhcc
Confidence            9999999999999887776654433       2222    24567899999984321        123446667777787


Q ss_pred             cEE-EeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHHHH
Q 022525          232 KVI-GEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       232 ~~~-~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      .++ ..||++..+.++...|.|++++.|.+..++.|.+..+++.+..
T Consensus       328 ~vl~~~I~~~~~~~~a~~~g~~V~e~~~~~~~~~~~~~a~~~~~~~~  374 (387)
T TIGR03453       328 HVLTNPMLKSTAISDAGLTKQTLYEVERSQFTRSTYDRAMESLDAVN  374 (387)
T ss_pred             ccccccccccHHHHhhhhcCCCcEEECCCCCCHHHHHHHHHHHHHHH
Confidence            666 4899999999999999999999987655555555555544433

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=99.97  E-value=1.8e-30  Score=207.26  Aligned_cols=169  Identities=63%  Similarity=1.085  Sum_probs=133.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      +|+|+|+|||+||||+|+|||..+|+ .|+||++||+|+|+++++.++.                               
T Consensus         1 vi~v~s~kgG~GKTt~a~~LA~~la~-~g~~vllvD~D~q~~~~~~~~~-------------------------------   48 (169)
T cd02037           1 VIAVMSGKGGVGKSTVAVNLALALAK-LGYKVGLLDADIYGPSIPKMWR-------------------------------   48 (169)
T ss_pred             CEEEecCCCcCChhHHHHHHHHHHHH-cCCcEEEEeCCCCCCCchHHHh-------------------------------
Confidence            58999999999999999999999999 9999999999999976543310                               


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCC
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQ  192 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  192 (295)
                              .......++.+++.+....||||||||||++++.......+..+|.+++|+.|+..++..+.+.++.+++.+
T Consensus        49 --------~~~~~~~l~~~~~~~~~~~yD~VIiD~pp~~~~~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~~~  120 (169)
T cd02037          49 --------GPMKMGAIKQFLTDVDWGELDYLVIDMPPGTGDEHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVN  120 (169)
T ss_pred             --------CcchHHHHHHHHHHhhcCCCCEEEEeCCCCCcHHHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHhcC
Confidence                    000123455555554337899999999999874333222225799999999999999999999999999999


Q ss_pred             CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCc
Q 022525          193 VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEM  241 (295)
Q Consensus       193 ~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~  241 (295)
                      .+..|+|+||+......+..+...+.....+++++.++.++++.||+++
T Consensus       121 ~~~~gvv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~  169 (169)
T cd02037         121 IPILGVVENMSYFVCPHCGKKIYIFGKGGGEKLAEELGVPLLGKIPLDP  169 (169)
T ss_pred             CCeEEEEEcCCcccCCCCCCcccccCCccHHHHHHHcCCCEEEeccCCC
Confidence            9999999999986544433333333345689999999999999999975

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=99.97  E-value=2.9e-30  Score=226.57  Aligned_cols=217  Identities=23%  Similarity=0.278  Sum_probs=169.2

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccc--ccC------------c
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVT--KDM------------K   93 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~--~~~------------~   93 (295)
                      ...+++|+|+|.|||+||||+|+|||++|++ +|++|++||+|+|+++++.++|.+...++.  +..            .
T Consensus        90 ~~~~~vIav~~~KGGvGkTT~a~nLA~~la~-~g~~VlLvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~l~~  168 (322)
T TIGR03815        90 PARGVVVAVIGGRGGAGASTLAAALALAAAR-HGLRTLLVDADPWGGGLDLLLGAEDVPGLRWPDLSQARGRLPAGALRD  168 (322)
T ss_pred             CCCceEEEEEcCCCCCcHHHHHHHHHHHHHh-cCCCEEEEecCCCCCCeeeeecCCCCCCcCHHHHhhcCCCcCHHHHHH
Confidence            3458999999999999999999999999999 999999999999999988899987654432  110            0


Q ss_pred             ccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC
Q 022525           94 MVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP  173 (295)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~  173 (295)
                      ..+. ..++.+++.+....        .......+..+++.++ +.||||||||||+.+  ......+..||.+++|+.+
T Consensus       169 ~~~~-~~~l~vl~~~~~~~--------~~~~~~~l~~~l~~l~-~~~D~VIID~p~~~~--~~~~~~L~~AD~vliV~~~  236 (322)
T TIGR03815       169 ALPR-RGGLSVLSWGRAVG--------AALPPAAVRAVLDAAR-RGGDLVVVDLPRRLT--PAAETALESADLVLVVVPA  236 (322)
T ss_pred             hCCC-cCCeEEEecCCCCc--------CCCCHHHHHHHHHHHH-hcCCEEEEeCCCCCC--HHHHHHHHHCCEEEEEcCC
Confidence            1122 34555555443211        1133567888888888 899999999999987  4566778899999999999


Q ss_pred             CcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCce
Q 022525          174 QDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPV  253 (295)
Q Consensus       174 ~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i  253 (295)
                      +..++..+.++++.+...+. .+.+|+|+...            .....+++.+.+|.++.+.||+++.+.++.+.|+++
T Consensus       237 ~~~sl~~a~r~l~~l~~~~~-~~~lVv~~~~~------------~~~~~~~i~~~lg~~v~~~Ip~d~~v~~a~~~G~~~  303 (322)
T TIGR03815       237 DVRAVAAAARVCPELGRRNP-DLRLVVRGPAP------------AGLDPEEIAESLGLPLLGEVRDQRGLARALERGGLP  303 (322)
T ss_pred             cHHHHHHHHHHHHHHhhhCC-CeEEEEeCCCC------------CCCCHHHHHHHhCCCceeeCCCChhHHHHHhCCCCc
Confidence            99999999999999887654 34677775431            012367888889999999999999999999999988


Q ss_pred             EEcCCCChHHHHHHHHHH
Q 022525          254 VISAPDSTVSRAYGEVAV  271 (295)
Q Consensus       254 ~~~~~~s~~~~~~~~l~~  271 (295)
                      . ..|.++..+.+..+..
T Consensus       304 ~-~~~~~~~~~~~~~~l~  320 (322)
T TIGR03815       304 A-ASRRRPLGRAAAEVLD  320 (322)
T ss_pred             C-CCCCCHHHHHHHHHHh
Confidence            8 6677887777766644

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.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=99.97  E-value=1.8e-30  Score=209.28  Aligned_cols=179  Identities=31%  Similarity=0.471  Sum_probs=145.8

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      +|+|+|.|||+||||+|+|||..|++ +|++|++||+|+|+++++.+++.......            .           
T Consensus         1 ~i~v~~~kgG~GKtt~a~~la~~l~~-~g~~vllvD~D~~~~~~~~~~~~~~~~~~------------~-----------   56 (179)
T cd02036           1 VIVVTSGKGGVGKTTTTANLGTALAQ-LGYKVVLIDADLGLRNLDLILGLENRVVY------------T-----------   56 (179)
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHHh-CCCeEEEEeCCCCCCCchhhccccccCCc------------c-----------
Confidence            58999999999999999999999999 99999999999998888777665431100            0           


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCC
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQ  192 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  192 (295)
                                     +...   +. .  |||||||||+.+.  .....+..+|.+|+|+.|+..++..+.+.++.++..+
T Consensus        57 ---------------~~~~---~~-~--d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~~~~~~  113 (179)
T cd02036          57 ---------------LHDV---LA-G--DYILIDSPAGIER--GFITAIAPADEALLVTTPEISSLRDADRVKGLLEALG  113 (179)
T ss_pred             ---------------hhhc---cc-C--CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCcchHHHHHHHHHHHHHcC
Confidence                           0000   11 1  9999999999874  4566778999999999999999999999999998888


Q ss_pred             CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChHHHHH
Q 022525          193 VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAY  266 (295)
Q Consensus       193 ~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~  266 (295)
                      .+..++|+|+++.+...        .....+++.+.++.++++.||+++.+.++...|++++++.|.++++++|
T Consensus       114 ~~~~~iv~N~~~~~~~~--------~~~~~~~~~~~~~~~v~~~Ip~~~~~~~a~~~G~~v~~~~~~~~~~~~~  179 (179)
T cd02036         114 IKVVGVIVNRVRPDMVE--------GGDMVEDIEEILGVPLLGVIPEDPAVIRATNRGEPVVLNKPKSPAAQAY  179 (179)
T ss_pred             CceEEEEEeCCcccccc--------hhhHHHHHHHHhCCCEEEEecCCHHHHHHHhcCCceEecCCCChhhhcC
Confidence            88899999999743211        1223567777889999999999999999999999999999999887754

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=99.97  E-value=1.6e-29  Score=209.05  Aligned_cols=193  Identities=24%  Similarity=0.224  Sum_probs=136.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc------------Cccccccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD------------MKMVPIEN   99 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~------------~~~~~~~~   99 (295)
                      ++|+|+| ||||||||+++|||++||+ .|+|||+||+|+|.+++..+++.+...++.+.            ........
T Consensus         1 ~~iav~g-KGGvGKTt~~~nLA~~la~-~G~rvLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (212)
T cd02117           1 RQIAIYG-KGGIGKSTTSQNLSAALAE-MGKKVLQVGCDPKADSTRLLLGGKAPTTILELAAEDGHVEDLELEDVIFEGF   78 (212)
T ss_pred             CEEEEEC-CCcCcHHHHHHHHHHHHHH-CCCcEEEEeCCCCCCccccccCCCCCCCHHHHHhhhCCcCCcChhHeeEeCC
Confidence            4799995 9999999999999999999 99999999999999776666665443333221            11122334


Q ss_pred             CCceeeccccccCCCCCCccCCchHH-HHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc--cCceEEEeeCCCcc
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVM-SALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL--QLSGALIVSTPQDV  176 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~--~ad~viiv~~~~~~  176 (295)
                      .+++++|.+...+... ....+.... ..++ .+..+. ++||||||||++.+....+ ...+.  .||.+++|+.|+..
T Consensus        79 ~~l~vlp~~~~~~~~~-~~~~~~~~~~~~l~-~l~~~~-~~yD~ilID~~g~~~~~~~-~~~l~~~~ad~vliv~~p~~~  154 (212)
T cd02117          79 GGVKCVESGGPEPGVG-CAGRGVITAVNLLE-KEGFAE-DDLDVVLYDVLGDVVCGGF-AMPIREGKADEIYIVTSGEFM  154 (212)
T ss_pred             CCcEEEeCCCCCCCcc-cCCcchhhHHHHHH-hccccc-cCCCEEEEecCCCceeccc-ccccccccCcEEEEEecccHH
Confidence            6788888765433322 112221111 2233 555566 8999999999765542222 12334  79999999999999


Q ss_pred             hHHHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCC
Q 022525          177 ALIDARKGITMFSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       177 s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                      ++.++.++++.++..    +.++.|+|+|+++..          ......+++.+.++.++++.||++
T Consensus       155 sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~----------~~~~~~~~~~~~~~~~vl~~IP~d  212 (212)
T cd02117         155 ALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD----------RETELIDAFAERLGTQVIHFVPRD  212 (212)
T ss_pred             HHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc----------cHHHHHHHHHHHcCCCEEEecCCC
Confidence            999988887777654    566789999999732          123457899999999999999986

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=99.97  E-value=9.5e-29  Score=213.19  Aligned_cols=230  Identities=23%  Similarity=0.222  Sum_probs=149.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcc-------cccccCCc-e
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKM-------VPIENYGV-K  103 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~-------~~~~~~~~-~  103 (295)
                      ++|+|+ +||||||||+|+|||+.||+ +|+||++||+|+|.+++..++|.....++.+....       ........ .
T Consensus         1 ~vIav~-gKGGvGKTT~a~nLA~~La~-~g~rVLlID~Dpq~~~~~~l~g~~~~~~l~dv~~~~~~~~~~~~~~~vi~~~   78 (296)
T TIGR02016         1 RIIAIY-GKGGSGKSFTTTNLSHMMAE-MGKRVLQLGCDPKHDSTSLLFGGISLPTIIEVATEKKLAGEEVKVGDVCFKT   78 (296)
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCeEEEEEecCCCCccchhccCCCCCCHHHHHHhhccccCCCCHHHheeec
Confidence            589999 89999999999999999999 99999999999999888888774333333332110       00000000 0


Q ss_pred             eeccccccCCCC-------C--CccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCc-cchhhhhhccCceEEEeeCC
Q 022525          104 CMSMGFLVPSSS-------P--VVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGD-AQLTTTQTLQLSGALIVSTP  173 (295)
Q Consensus       104 ~~~~~~~~~~~~-------~--~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~-~~~~~~~l~~ad~viiv~~~  173 (295)
                      .++.+.......       .  +.++.......+...+..+. ++||||||||++.+.+ .......+..||.+|+|+.+
T Consensus        79 ~~~~~~~~~~~~e~~~~~~~~gc~~~~~~~~~~~l~~l~~~~-~~yD~IliD~~~~~~~~g~~~~~a~~~Ad~viVvt~~  157 (296)
T TIGR02016        79 TIMNGSGGVYGMELGGPEVGRGCGGRGIIHGFDLLEKLGFHD-WDFDFVLMDFLGDVVCGGFATPLARSLAEEVIVIGSN  157 (296)
T ss_pred             cccCcCCCcceeecCCCCcccccCcchhhHHHHHHHHhhhhc-ccCCEEEEecCCCccccccccchhhhhCCeEEEEecc
Confidence            011111000000       0  01111111122222233334 5899999999764411 11122334579999999999


Q ss_pred             CcchHHHHHHHHH---HHhcC--CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccccccc
Q 022525          174 QDVALIDARKGIT---MFSKV--QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSD  248 (295)
Q Consensus       174 ~~~s~~~~~~~~~---~l~~~--~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~  248 (295)
                      +..++.++..+.+   .+++.  ..+++|+|+||+..             ....+++++++++++++.||+++.+.++. 
T Consensus       158 e~~sl~~a~~l~k~v~~~~~~~~~v~i~GVV~N~~~~-------------~~~~~~~~~~~~i~vLg~IP~d~~i~~~~-  223 (296)
T TIGR02016       158 DRQSLYVANNICNAVEYFRKLGGRVGLLGLVVNRDDG-------------SGEAQAFAREVGIPVLAAIPADEELRRKS-  223 (296)
T ss_pred             hHHHHHHHHHHHHHHHHHHHcCCCCcceEEEEeCCCC-------------ccHHHHHHHHcCCCeEEECCCCHHHHHHh-
Confidence            9999877655555   55454  36789999999852             13468889999999999999999998844 


Q ss_pred             CCCceEEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          249 DGVPVVISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       249 ~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      .+.+.....+.+.+++.|.++++.+.+.+.
T Consensus       224 ~~~~~~~~~~~~~~~~~f~~la~~i~~~~~  253 (296)
T TIGR02016       224 LAYQIVGSHATPRFGKLFEELAGNVADAPP  253 (296)
T ss_pred             cCCCeeecCCCHHHHHHHHHHHHHHHHhcC
Confidence            444444444556689999999999988765

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.96  E-value=1.9e-28  Score=207.57  Aligned_cols=224  Identities=45%  Similarity=0.704  Sum_probs=171.3

Q ss_pred             hhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc
Q 022525            7 IFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP   86 (295)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~   86 (295)
                      +.+.++.++.++.+.....  ....++|+++|+|||+||||+|+|||.++|+ .|+||++||+|..+|+++.+||..+..
T Consensus        35 ~~~~~~~~~~~~~~~~~~~--~~~~~~I~V~S~kgGvGKStva~nLA~alA~-~G~rVlliDaD~~gps~~~~l~~~~~~  111 (265)
T COG0489          35 ASEALRALRTNLKFAKVLR--KGVKNVIAVTSGKGGVGKSTVAVNLAAALAQ-LGKRVLLLDADLRGPSIPRMLGLENLP  111 (265)
T ss_pred             hhhhhhhhhcchhhhhccc--cccceEEEEEeCCCCCcHHHHHHHHHHHHHh-cCCcEEEEeCcCCCCchHHHhCCCCCC
Confidence            4455666666544443221  2347999999999999999999999999999 999999999999999999999997644


Q ss_pred             ccccc---CcccccccC-CceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc
Q 022525           87 EVTKD---MKMVPIENY-GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL  162 (295)
Q Consensus        87 ~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~  162 (295)
                      +..+.   ....+.... .+..++.++...  ....+++...+..+.+++...+|..|||||||+||+..+....+.. .
T Consensus       112 g~~~~~~g~~~~~~~~~~~~~~lsi~~~~~--~p~~~r~~l~s~~~~qll~~~~~~~~D~vIID~PP~~g~~d~~i~~-~  188 (265)
T COG0489         112 GLTELLAGEALEPVIQHDGIKVLSILPLGP--VPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGDADATVLQ-R  188 (265)
T ss_pred             CcccccCCCccccceecCccceEEEEecCC--CCCCChHhhhhHHHHHHHHHHhccCCCEEEEeCCCCchHHHHHHHh-c
Confidence            33332   113332222 244444444333  4555677888999999999999655999999999999875554433 3


Q ss_pred             cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcc
Q 022525          163 QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMD  242 (295)
Q Consensus       163 ~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~  242 (295)
                      ..|.+|+|++|+......+.+.++.+++.+.+++|+|.||....++.+.       ....+.+.++++ ++++.+|.+..
T Consensus       189 ~~~g~viVt~p~~~~~~~v~ka~~~~~~~~~~vlGvv~Nm~~~~~~~~~-------~g~~~~~~~~~~-~~~g~~p~~~~  260 (265)
T COG0489         189 IPDGVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFICPRCG-------EGGGEKYAERYG-PYLGSIPLDPS  260 (265)
T ss_pred             cCCeEEEEeCCccchHHHHHHHHHHHHhcCCceEEEEecCccCcccccC-------CCchhhHHHHhc-cccccCCCChh
Confidence            5689999999999999999999999999999999999999987666543       234667777777 88888888766


Q ss_pred             cc
Q 022525          243 IR  244 (295)
Q Consensus       243 ~~  244 (295)
                      ..
T Consensus       261 ~~  262 (265)
T COG0489         261 AR  262 (265)
T ss_pred             hh
Confidence            54

>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring

Probab=99.96  E-value=8e-28  Score=208.19  Aligned_cols=228  Identities=22%  Similarity=0.281  Sum_probs=162.1

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCc---ccc-------
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMK---MVP-------   96 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~---~~~-------   96 (295)
                      ..+..++|+|+ +|||+||||+++|||++||+ .|++|++||+|+++++++.+||..+...+.+...   ..+       
T Consensus        27 ~~~~~~ii~v~-gkgG~GKSt~a~nLa~~la~-~g~rVllid~D~~~~~~~~~~g~~~~~~i~d~~~~~~l~~~~~~~~d  104 (329)
T cd02033          27 PTKKTQIIAIY-GKGGIGKSFTLANLSYMMAQ-QGKRVLLIGCDPKSDTTSLLFGGKACPTIIETSAKKKLAGEEVQIGD  104 (329)
T ss_pred             CCCCCeEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCcEEEEEeeecccccchhccccCCCcccccccccccCcccceeec
Confidence            33457999998 59999999999999999999 9999999999999999999999776555443211   010       


Q ss_pred             --cccCCceeeccccccCCCCCCccCCchHH--HHHHHHHHhc---cCCCccEEEEcCCCCCCccchhhh-hhccCceEE
Q 022525           97 --IENYGVKCMSMGFLVPSSSPVVWRGPMVM--SALRKMSREV---DWGNLDILVIDMPPGTGDAQLTTT-QTLQLSGAL  168 (295)
Q Consensus        97 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~l---~~~~yD~iiiD~~~~~~~~~~~~~-~l~~ad~vi  168 (295)
                        ....++.++..+      ....+++....  -....+++.+   . +.||||||||+++..+..+... ....+|.+|
T Consensus       105 v~~~~~gv~~~~~g------~p~~~~G~~~~~~i~~~~~l~~l~~~~-w~~DyVliD~~gdv~~ggf~l~i~~~~ad~VI  177 (329)
T cd02033         105 VCFKRDGVFAMELG------GPEVGRGCGGRGIIHGFELLEKLGFHD-WDFDYVLLDFLGDVVCGGFGLPIARDMAQKVI  177 (329)
T ss_pred             eEEEeCCEEEecCC------CCeecccccchHHHHHHHHHHHccCcc-ccCCEEEEecCCcceeccccchhhhcCCceEE
Confidence              011233333211      11122222211  1111344443   5 4899999999876642222211 123578999


Q ss_pred             EeeCCCcchHHH---HHHHHHHHhcCC--CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccc
Q 022525          169 IVSTPQDVALID---ARKGITMFSKVQ--VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDI  243 (295)
Q Consensus       169 iv~~~~~~s~~~---~~~~~~~l~~~~--~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~  243 (295)
                      +|+.|+..++..   +.+.++.+++.+  .+++|+|+||++.             ....+++++.+++++++.||+++.+
T Consensus       178 VVt~pe~~si~~A~~v~kai~~~~~lg~~~~i~GlViNr~d~-------------~~~ie~~ae~lgi~vLg~IP~D~~V  244 (329)
T cd02033         178 VVGSNDLQSLYVANNVCNAVEYFRKLGGNVGVAGMVINKDDG-------------TGEAQAFAAHAGIPILAAIPADEEL  244 (329)
T ss_pred             EeCCchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCcCC-------------cchHHHHHHHhCCCEEEECCCCHHH
Confidence            999999999865   455567777664  5779999999862             1347889999999999999999999


Q ss_pred             cccccCCCceEEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          244 RKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       244 ~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      .++...|+++  ..|.+++++.|+++|+.|.+...
T Consensus       245 ~~a~~~g~~~--~~p~s~~a~~f~~LA~~I~~~~~  277 (329)
T cd02033         245 RRKSAAYQIV--GRPGTTWGPLFEQLATNVAEAPP  277 (329)
T ss_pred             HHHHHcCCee--cCCCCHHHHHHHHHHHHHHHhcC
Confidence            9999999853  46889999999999999987553

This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=99.96  E-value=1.7e-28  Score=201.96  Aligned_cols=189  Identities=21%  Similarity=0.288  Sum_probs=143.5

Q ss_pred             chhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccC
Q 022525            4 SFRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID   83 (295)
Q Consensus         4 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~   83 (295)
                      .+.+.++++.||+++..........+.+++|+|+|+|||+||||+++|||++||+..|+||++||+|++.++++.+++.+
T Consensus         8 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~vi~v~s~kgG~GkSt~a~nLA~~la~~~g~~VLlvD~D~~~~~~~~~~~~~   87 (207)
T TIGR03018         8 RSRIAEEFRKIKRPLLANAFSANRKKNNNLIMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDADLRRPSLHRTLGLE   87 (207)
T ss_pred             CCHHHHHHHHHHHHHHHhccccccCCCCeEEEEECCCCCCCHHHHHHHHHHHHHHhcCCeEEEEECCCCChhhhheeCCC
Confidence            35577889999999875442222344589999999999999999999999999962599999999999999999999988


Q ss_pred             CCccccccCc---------ccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCc--cEEEEcCCCCCC
Q 022525           84 QKPEVTKDMK---------MVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNL--DILVIDMPPGTG  152 (295)
Q Consensus        84 ~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~y--D~iiiD~~~~~~  152 (295)
                      ...++.+...         .......++++++.+.......     .......+..+++.++ +.|  |||||||||+.+
T Consensus        88 ~~~~l~~~l~~~~~~l~~~i~~~~~~~l~vl~~g~~~~~~~-----~~~~~~~l~~~l~~l~-~~y~~D~IiiD~pp~~~  161 (207)
T TIGR03018        88 AEPGLSDCLLDPVLDLADVLVPTNIGRLSLLPAGRRHPNPT-----ELLASQRMRSLLHELA-RRYPDRIIIIDTPPLLV  161 (207)
T ss_pred             CCCCHHHHHcCCCCCHHHHhccCCCCCEEEEeCCCCCCCHH-----HHhCcHHHHHHHHHHH-hhCCCCEEEEECCCCcc
Confidence            7666544211         1122245677776654322111     1122467888888888 778  999999999986


Q ss_pred             ccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEec
Q 022525          153 DAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN  201 (295)
Q Consensus       153 ~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN  201 (295)
                      . ......+..+|.+|+|+.++..+...+.+.++.++  +.+++|+|+|
T Consensus       162 ~-~~~~~l~~~aD~viiV~~~~~~~~~~~~~~~~~l~--~~~~~G~v~N  207 (207)
T TIGR03018       162 F-SEARALARLVGQIVLVVEEGRTTQEAVKEALSALE--SCKVLGVVLN  207 (207)
T ss_pred             h-hHHHHHHHhCCEEEEEEECCCCCHHHHHHHHHHhc--CCCeEEEEeC
Confidence            3 22333345799999999999999999999999998  6789999998

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=99.96  E-value=3.2e-27  Score=189.08  Aligned_cols=222  Identities=22%  Similarity=0.298  Sum_probs=174.7

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC-ccccccCc------------------
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK-PEVTKDMK------------------   93 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~-~~~~~~~~------------------   93 (295)
                      .|+| ++|||+||||+|+.|+..|..+.|++||+||+|+ ..+++..+|++.. ..+.+...                  
T Consensus         2 kIaI-~GKGG~GKTtiaalll~~l~~~~~~~VLvVDaDp-d~nL~~~LGve~~~~~lg~~~e~~~k~~~a~~~~~~~~~f   79 (255)
T COG3640           2 KIAI-TGKGGVGKTTIAALLLKRLLSKGGYNVLVVDADP-DSNLPEALGVEEPMKYLGGKRELLKKRTGAEPGGPPGEMF   79 (255)
T ss_pred             eEEE-ecCCCccHHHHHHHHHHHHHhcCCceEEEEeCCC-CCChHHhcCCCCCCcccccHHHHHHHHhccCCCCCccccc
Confidence            4666 5999999999999988888772459999999999 6799999999873 22221100                  


Q ss_pred             -----------ccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc
Q 022525           94 -----------MVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL  162 (295)
Q Consensus        94 -----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~  162 (295)
                                 .......+++++-.|........+.|+.   ...++++++.+..+.||+||+||-+|+.  .+.+-...
T Consensus        80 k~~~~~~di~~e~~~e~~~~~LLvmGkie~~GeGC~Cp~---~allR~~l~~l~~~~~e~VivDtEAGiE--HfgRg~~~  154 (255)
T COG3640          80 KENPLVSDLPDEYLVENGDIDLLVMGKIEEGGEGCACPM---NALLRRLLRHLILNRYEVVIVDTEAGIE--HFGRGTIE  154 (255)
T ss_pred             ccCcchhhhhHHHhhhcCCccEEEeccccCCCCcccchH---HHHHHHHHHHHhcccCcEEEEecccchh--hhcccccc
Confidence                       0011233355555555555556666654   4667778888775679999999999998  78888888


Q ss_pred             cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcc
Q 022525          163 QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMD  242 (295)
Q Consensus       163 ~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~  242 (295)
                      .+|.+|+|+.|+..|+.-+.+..+..++.++..+++|+|+++.       .     .....+.....+.+++++||+|+.
T Consensus       155 ~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e-------~-----e~~~~~~~~~~~~~vlg~iP~d~~  222 (255)
T COG3640         155 GVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDE-------E-----EELLRELAEELGLEVLGVIPYDPE  222 (255)
T ss_pred             CCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccc-------h-----hHHHHhhhhccCCeEEEEccCCHH
Confidence            9999999999999999999999999999998888999999972       1     134677788889999999999999


Q ss_pred             ccccccCCCceEEcCCCChHHHHHHHHHHHHHHH
Q 022525          243 IRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNR  276 (295)
Q Consensus       243 ~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~  276 (295)
                      +.++--.|.|+... |  .+.++++++++.|...
T Consensus       223 v~~~dl~G~pl~~~-~--~v~~~i~~I~~~l~~~  253 (255)
T COG3640         223 VVEADLKGEPLNEE-P--EVLKEIEEIAERLIKL  253 (255)
T ss_pred             HHhccccCCccccc-h--hhhHHHHHHHHHHHhc
Confidence            99999999999976 4  7788888888888653

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=99.96  E-value=1.2e-27  Score=195.65  Aligned_cols=223  Identities=27%  Similarity=0.386  Sum_probs=161.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccc----------ccc---------
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV----------TKD---------   91 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~----------~~~---------   91 (295)
                      |+.|+|.|+|||+||||+|+|||..|+.  .++++++|+|-..|+++.+++.+.....          .+.         
T Consensus         1 mm~vAV~sGKGGtGKTTva~~la~~l~~--~~~~~l~DcDVe~PNl~l~l~~e~~~~~e~~~~~~p~i~~e~C~~CG~C~   78 (284)
T COG1149           1 MMQVAVASGKGGTGKTTVAANLAVLLGD--KYKLVLADCDVEAPNLHLLLGVEVLEEEEVIRGEIPEIDPEKCIRCGKCA   78 (284)
T ss_pred             CcEEEEeecCCCCChhhHHHHHHHHhcc--ccceEEEecCCCCCCcceEeccchhhhhHHHHhhccccChhhccccCcHH
Confidence            4679999999999999999999999998  7899999999999999999987653111          110         


Q ss_pred             -----Ccc--cccccCCc----------------------eeeccc-----------cccCCCCCCccCCchHHHHHHHH
Q 022525           92 -----MKM--VPIENYGV----------------------KCMSMG-----------FLVPSSSPVVWRGPMVMSALRKM  131 (295)
Q Consensus        92 -----~~~--~~~~~~~~----------------------~~~~~~-----------~~~~~~~~~~~~~~~~~~~l~~~  131 (295)
                           ..+  .+.+.+.+                      .-...|           ++...  .+...+....+-+..+
T Consensus        79 ~vC~f~Ai~~~~~~~~~~~~~lC~GCgaC~~~CP~~AI~~~~~~~G~i~~~k~~~g~~li~g--~l~vGe~~s~~lV~~~  156 (284)
T COG1149          79 EVCRFGAIVVLPGGKPVLNPDLCEGCGACSIVCPEPAIEEEPVVIGKIYESKTDYGFPLISG--RLNVGEEESGKLVTAL  156 (284)
T ss_pred             HhCCCCeEEEcCCCceecCcccccCcccceeeCCCcccccccceeeEEEEEEcCCCceeEEe--eccCCccccchHHHHH
Confidence                 000  00000000                      000001           00000  0111111122223333


Q ss_pred             HHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCC
Q 022525          132 SREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCS  211 (295)
Q Consensus       132 ~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~  211 (295)
                      .+... +.-|++|||+|||.+++.+  ..+..+|.+|+|+.|+++++.++++.++..+.++++. ++|+|+++..     
T Consensus       157 kk~a~-E~~~~~IIDsaaG~gCpVi--~sl~~aD~ai~VTEPTp~glhD~kr~~el~~~f~ip~-~iViNr~~~g-----  227 (284)
T COG1149         157 KKHAK-ELADLLIIDSAAGTGCPVI--ASLKGADLAILVTEPTPFGLHDLKRALELVEHFGIPT-GIVINRYNLG-----  227 (284)
T ss_pred             HHhhh-hhcceeEEecCCCCCChHH--HhhccCCEEEEEecCCccchhHHHHHHHHHHHhCCce-EEEEecCCCC-----
Confidence            33333 3369999999999998654  5677999999999999999999999999999999998 5999998532     


Q ss_pred             CCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHH
Q 022525          212 EPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVN  275 (295)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~  275 (295)
                             ....++++.+.|+++++.|||+..+.++...|.|+.+  ++++.+..+...+.++.+
T Consensus       228 -------~s~ie~~~~e~gi~il~~IPyd~~i~~~~~~g~~~~~--~~~k~~~~~~~~~~~~~~  282 (284)
T COG1149         228 -------DSEIEEYCEEEGIPILGEIPYDKDIPEAYVNGEPFVE--PDSKEAEAILEEAEKLKE  282 (284)
T ss_pred             -------chHHHHHHHHcCCCeeEECCcchhHHHHHhCCCcccc--ccchHHHHHHHHHHHHHh
Confidence                   1248999999999999999999999999999999998  788888888877666654

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=99.95  E-value=5.8e-28  Score=207.54  Aligned_cols=186  Identities=21%  Similarity=0.257  Sum_probs=148.3

Q ss_pred             hhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC
Q 022525            5 FRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      +.+.|.++.||+++.+....    ...++|+|+|+|||+||||+|+|||.++|+ .|+||++||+|++.+.++.+++.+.
T Consensus        81 ~~~~e~~~~l~~~l~~~~~~----~~~~vi~vts~~~g~Gktt~a~nLA~~la~-~g~~VllID~D~~~~~~~~~~~~~~  155 (274)
T TIGR03029        81 SPQVEALRALRSQLMLRWFS----EGRKALAVVSAKSGEGCSYIAANLAIVFSQ-LGEKTLLIDANLRDPVQHRNFKLSE  155 (274)
T ss_pred             CHHHHHHHHHHHHhhhhccC----CCCeEEEEECCCCCCCHHHHHHHHHHHHHh-cCCeEEEEeCCCCCccHHHhcCCCC
Confidence            56789999999999876532    237999999999999999999999999999 9999999999999999998999887


Q ss_pred             CccccccCc-------cc-ccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch
Q 022525           85 KPEVTKDMK-------MV-PIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL  156 (295)
Q Consensus        85 ~~~~~~~~~-------~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~  156 (295)
                      ..++.+...       .. .....++++++.|........     ......+..+++.++ ..||||||||||.... .-
T Consensus       156 ~~gl~~~l~~~~~~~~i~~~~~~~~l~~lp~g~~~~~~~~-----~~~~~~~~~~l~~l~-~~yD~ViiD~pp~~~~-~d  228 (274)
T TIGR03029       156 QRGLSDILAGRSDLEVITHIPALENLSVLPAGAIPPNPQE-----LLARPAFTDLLNKVM-GDYDVVIVDTPSAEHS-SD  228 (274)
T ss_pred             CCCHHHHhCCCCCHHHeeecCCCCCEEEEeCcCCCCCHHH-----HhCcHHHHHHHHHHH-hcCCEEEEeCCCcccc-cH
Confidence            777655321       11 112357888887754332211     112356788888888 8999999999997643 22


Q ss_pred             hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEecc
Q 022525          157 TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENM  202 (295)
Q Consensus       157 ~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~  202 (295)
                      .......+|.+|+|+.++..+...+...++.+++.+.+++|+|+|+
T Consensus       229 ~~~~~~~~d~vilV~~~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~  274 (274)
T TIGR03029       229 AQIVATRARGTLIVSRVNETRLHELTSLKEHLSGVGVRVVGAVLNQ  274 (274)
T ss_pred             HHHHHHhCCeEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEeCC
Confidence            2333457899999999999999999999999999999999999996

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=99.95  E-value=7.2e-28  Score=198.13  Aligned_cols=184  Identities=20%  Similarity=0.263  Sum_probs=139.8

Q ss_pred             hhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC-Ccc
Q 022525            9 TRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ-KPE   87 (295)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~-~~~   87 (295)
                      |.|+.||+++.+....      +|+|+|+|.|||+||||+++|||.+||+ .|++|++||+|++.+.++.+++... ..+
T Consensus         1 ~~~~~l~~~l~~~~~~------~kvI~v~s~kgG~GKTt~a~~LA~~la~-~G~rVllID~D~~~~~l~~~~~~~~~~~~   73 (204)
T TIGR01007         1 EYYNAIRTNIQFSGAE------IKVLLITSVKPGEGKSTTSANIAVAFAQ-AGYKTLLIDGDMRNSVMSGTFKSQNKITG   73 (204)
T ss_pred             ChHHHHHHHHhhhcCC------CcEEEEecCCCCCCHHHHHHHHHHHHHh-CCCeEEEEeCCCCChhHHHHhCCCCCCCC
Confidence            4577889998876533      7999999999999999999999999999 9999999999999998888887765 444


Q ss_pred             ccccCc--------ccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhh
Q 022525           88 VTKDMK--------MVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTT  159 (295)
Q Consensus        88 ~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~  159 (295)
                      +.+...        .......++.+++.+.......     .......+..+++.++ ..||+|||||||.... .....
T Consensus        74 l~~~l~~~~~l~~~i~~~~~~~l~~l~~g~~~~~~~-----~~l~~~~l~~~l~~l~-~~yD~ViiD~pp~~~~-~~~~~  146 (204)
T TIGR01007        74 LTNFLSGTTDLSDAICDTNIENLFVITSGPVPPNPT-----ELLQSSNFKTLIETLR-KYFDYIIIDTPPIGTV-TDAAI  146 (204)
T ss_pred             HHHHhcCCCCHHHhcccCCCCCEEEEeCCCCCCCHH-----HHhCcHHHHHHHHHHH-hcCCEEEEeCCCcccc-chHHH
Confidence            433211        1112225667776654322111     1112356788888888 8999999999984331 11122


Q ss_pred             hhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          160 QTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       160 ~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ....+|.+|+|+.++..+...+.+.++.+++.+.+++|+|+|+++..
T Consensus       147 ~~~~~D~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~gvVlN~~~~~  193 (204)
T TIGR01007       147 IARACDASILVTDAGEIKKRDVQKAKEQLEQTGSNFLGVVLNKVDIS  193 (204)
T ss_pred             HHHhCCeEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEEeCcccc
Confidence            23368999999999999999999999999999999999999999854

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=99.95  E-value=2.2e-27  Score=197.42  Aligned_cols=206  Identities=15%  Similarity=0.134  Sum_probs=137.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      |++|+|.|.||||||||+++|||..|++ +|++|++||+|+|++ +..+++........      +.   ....      
T Consensus         1 M~iI~v~n~KGGvGKTT~a~nLA~~la~-~G~~VlliD~DpQ~s-~~~w~~~~~~~~~~------~~---~~~~------   63 (231)
T PRK13849          1 MKLLTFCSFKGGAGKTTALMGLCAALAS-DGKRVALFEADENRP-LTRWKENALRSNTW------DP---ACEV------   63 (231)
T ss_pred             CeEEEEECCCCCccHHHHHHHHHHHHHh-CCCcEEEEeCCCCCC-HHHHHHhhccccCC------Cc---ccee------
Confidence            4899999999999999999999999999 999999999999984 44444322111100      00   0000      


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhc
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSK  190 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~  190 (295)
                       .        .......+...++.+..+.||||||||||+.+  ......+..||.+|+|+.|+..++..+.++++.+.+
T Consensus        64 -~--------~~~~~~~l~~~l~~~~~~~yD~iiID~pp~~~--~~~~~al~~aD~vliP~~ps~~d~~~~~~~~~~v~~  132 (231)
T PRK13849         64 -Y--------AADELPLLEAAYEDAELQGFDYALADTHGGSS--ELNNTIIASSNLLLIPTMLTPLDIDEALSTYRYVIE  132 (231)
T ss_pred             -c--------CCCHHHHHHHHHHHHhhCCCCEEEEeCCCCcc--HHHHHHHHHCCEEEEeccCcHHHHHHHHHHHHHHHH
Confidence             0        00112345555555532679999999999888  566677889999999999999999888888766543


Q ss_pred             ------CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE-EeecCCccccccccCCCceEEcCCCC--h
Q 022525          191 ------VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI-GEIPIEMDIRKGSDDGVPVVISAPDS--T  261 (295)
Q Consensus       191 ------~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-~~Ip~~~~~~~a~~~g~~i~~~~~~s--~  261 (295)
                            .+.+. .+|+|+++.....       ......++..+  +.+++ ..|+....+.++...|.+.....+..  +
T Consensus       133 ~~~~~~~~l~~-~iv~~~~~~~~~~-------~~~~~~~~~~~--~~~vl~t~I~~r~~~~~a~~~G~~~~~~~~~~~~~  202 (231)
T PRK13849        133 LLLSENLAIPT-AILRQRVPVGRLT-------TSQRAMSDMLE--SLPVVDSPMHERDAFAAMKERGMLHLTLLNLSTDP  202 (231)
T ss_pred             HHHHhCCCCCe-EEEEEecccccCC-------HHHHHHHHHHh--cCCCCCccccchHHHHHHHhcCCcccchhhccccH
Confidence                  24444 4999998632110       11123444444  34454 48999999999999999776544433  2


Q ss_pred             HH-HHHHHHHHHHH
Q 022525          262 VS-RAYGEVAVNVV  274 (295)
Q Consensus       262 ~~-~~~~~l~~~l~  274 (295)
                      .. ...+++...+.
T Consensus       203 ~~~~~~~~~~~~~~  216 (231)
T PRK13849        203 TMRLLERNLRIAME  216 (231)
T ss_pred             HHHHHHHhHHHHHH
Confidence            22 24455544443

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=99.95  E-value=2.3e-26  Score=185.34  Aligned_cols=178  Identities=28%  Similarity=0.402  Sum_probs=125.8

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      .|+|+|+|||+||||+|+|||..|     ++|++||+|++.|+++.++|..+...................+.+.+..  
T Consensus         1 ~I~v~s~kgG~GKSt~a~nLA~~l-----~~vlliD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--   73 (179)
T cd03110           1 QIAVISGKGGTGKTTVTAALAALL-----KNVVLADCDVDAPNLHLFLKPEIEEEEDFIVGGKKAVIDPELCISCGLC--   73 (179)
T ss_pred             CEEEEcCCCCCCHHHHHHHHHHHH-----hCcEEEECCCCCCchhhhcCCCccccccceecCCceEEchhhhccccch--
Confidence            389999999999999999999999     4999999999999999999997654322110000000000011110000  


Q ss_pred             CCCCCccCCchHHHHHHHHHHhc-cCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC
Q 022525          113 SSSPVVWRGPMVMSALRKMSREV-DWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV  191 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l-~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  191 (295)
                               ......+.+.+..+ ....||||||||||+.+.  .....+..+|.+++|+.|+..++..+.+.++.+++.
T Consensus        74 ---------~~~~~~~~~~~~~~~~~~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~  142 (179)
T cd03110          74 ---------GKLVTEVRKHAKEIAKAEGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPTPSGLHDLERAVELVRHF  142 (179)
T ss_pred             ---------HHHHHHHHHHHHHhhhhcCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHc
Confidence                     11122333333221 127899999999999874  445667789999999999999999999999999888


Q ss_pred             CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeec
Q 022525          192 QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIP  238 (295)
Q Consensus       192 ~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip  238 (295)
                      +.+. ++|+|+++....         ......++++.+|.++++.||
T Consensus       143 ~~~~-~vV~N~~~~~~~---------~~~~~~~~~~~~~~~vl~~ip  179 (179)
T cd03110         143 GIPV-GVVINKYDLNDE---------IAEEIEDYCEEEGIPILGKIP  179 (179)
T ss_pred             CCCE-EEEEeCCCCCcc---------hHHHHHHHHHHcCCCeEEeCC
Confidence            7765 799999874311         123467788889999999987

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=99.93  E-value=5.1e-25  Score=180.92  Aligned_cols=230  Identities=23%  Similarity=0.252  Sum_probs=158.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc------------Cccccccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD------------MKMVPIEN   99 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~------------~~~~~~~~   99 (295)
                      |.|+|+ +|||+||||+++||+.+||+ .|+||+.|-|||-..++..+++-...+.+.+.            ..+...+.
T Consensus         1 r~IAiY-GKGGIGKST~~~Nlsaala~-~G~kVl~iGCDPK~DST~~ll~g~~~~Tvld~~~~~~~~e~~~ledvv~~G~   78 (273)
T PF00142_consen    1 RKIAIY-GKGGIGKSTTASNLSAALAE-MGKKVLQIGCDPKADSTRLLLGGKAIPTVLDLLREKGSVEDLELEDVVKEGF   78 (273)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHHHHHHHH-TT--EEEEEESSSSTSSCHHHTTSS-SBHHHHHHHHCTGGGS-HHHHSEEEG
T ss_pred             CeEEEE-cCCCcccChhhhHHHHHHHh-ccceeeEecccCCCccceeccCCccchhHHHHHhhccccccCCCCcEEEecc
Confidence            568887 99999999999999999999 99999999999999888777776655444332            12233445


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHh---ccCCCccEEEEcCCCCCCccchhhhhh-ccCceEEEeeCCCc
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSRE---VDWGNLDILVIDMPPGTGDAQLTTTQT-LQLSGALIVSTPQD  175 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---l~~~~yD~iiiD~~~~~~~~~~~~~~l-~~ad~viiv~~~~~  175 (295)
                      .++.++..|-   +.+..-|.+.-.... -++++.   .. ..||+|+.|.-+..-+..+....- -.|+.++||++.+.
T Consensus        79 ~gi~CvEsGG---PePGvGCaGRGI~~a-~~~L~~~~~~~-~~~D~v~yDVLGDVVCGGFamPir~g~a~evyIVtSge~  153 (273)
T PF00142_consen   79 KGILCVESGG---PEPGVGCAGRGIITA-LELLEELGAYE-DDYDFVLYDVLGDVVCGGFAMPIREGYAQEVYIVTSGEF  153 (273)
T ss_dssp             GGEEEEE------SCTTSSBHHHHHHHH-HHHHHHTTTST-STSSEEEEEEESSSSCTTTTHHHHTTS-SEEEEEEBSSH
T ss_pred             CCceeeccCC---Ccccccccccchhhh-hhhHHhhhhhh-cCCceEEEEEEeeeEEeeeehhhhhccCCEEEEEecCcH
Confidence            6677776652   222222222211222 222333   33 579999999876554444432221 15899999999999


Q ss_pred             chHHHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCC
Q 022525          176 VALIDARKGITMFSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGV  251 (295)
Q Consensus       176 ~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~  251 (295)
                      .|+..+-+....+++.    +.++-|+|.|.-+.          ....+.++++.++.|.++++.||++..+.++...++
T Consensus       154 mslyAANNI~~~i~~~~~~g~~~l~GiI~N~r~~----------~~e~~~v~~fa~~~g~~i~~~iPr~~~v~~ae~~~~  223 (273)
T PF00142_consen  154 MSLYAANNICKAIKNFADRGGARLGGIICNSRNV----------DDEEEIVEDFAERIGTPIIAFIPRSEIVQRAELYGK  223 (273)
T ss_dssp             HHHHHHHHHHHHHHHHCTTSS-EEEEEEEE-SSS----------TTHHHHHHHHHHHHTSEEEEEE---HHHHHHHHCTS
T ss_pred             HHHHHHHHHHHHHHHHhccCCCceEEEEecCCCC----------CCchHHHHHHHHHcCCcEEEecCchHHHHHHHHcCC
Confidence            9999888888887764    34678899996431          112356899999999999999999999999999999


Q ss_pred             ceEEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          252 PVVISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       252 ~i~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      ++++..|+++.+..|++||+.|++.-.
T Consensus       224 TVie~~P~s~~a~~yr~LA~~I~~~~~  250 (273)
T PF00142_consen  224 TVIEAAPDSEQAQEYRELARKILENPE  250 (273)
T ss_dssp             -CCCC-TTSHHHHHHHHHHHHHHH---
T ss_pred             EEEEeCCCcHHHHHHHHHHHHHHhCCC
Confidence            999999999999999999999997653

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=99.93  E-value=1.7e-25  Score=216.88  Aligned_cols=188  Identities=14%  Similarity=0.088  Sum_probs=149.1

Q ss_pred             hhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC
Q 022525            6 RIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK   85 (295)
Q Consensus         6 ~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~   85 (295)
                      .+.|.++.+|+++.+....    ..+++|+|+|.|||+||||+|+|||+.||+ .|+||++||+|++.++++.+||..+.
T Consensus       525 ~~~Ea~r~lr~~l~~~~~~----~~~kvi~vts~~~G~GKTt~a~nLA~~lA~-~g~rvLlID~D~~~~~l~~~~~~~~~  599 (754)
T TIGR01005       525 VAEEELRVKEEAVAEAKSV----AEPEVVETQRPRPVLGKSDIEANAAALIAS-GGKRALLIDADGRKAALSQILVAREV  599 (754)
T ss_pred             cchHHHHHHHHHHhhhccC----CCceEEEeecCCCCCChhHHHHHHHHHHHh-CCCeEEEEeCCCCchhHHHHhCCccc
Confidence            4578899999999876543    236999999999999999999999999999 99999999999999999999998877


Q ss_pred             ccccccC--------cccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh
Q 022525           86 PEVTKDM--------KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT  157 (295)
Q Consensus        86 ~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~  157 (295)
                      .++.+..        .+......++++++.+........     ......+..+++.++ +.||||||||||....... 
T Consensus       600 ~gl~~~l~~~~~~~~~i~~~~~~~l~~l~~g~~~~~~~~-----ll~~~~~~~~l~~l~-~~yD~IiID~pp~~~~~d~-  672 (754)
T TIGR01005       600 SGLLDLLAGLRSLLLDLTASGAASLPMLDSGLFPHGITE-----LLASPAMFSLVIHAR-LYSDCVVVDVGTADPVRDM-  672 (754)
T ss_pred             CChHHHHcCCccHHHHhccCCCCCeeEecCCCCCCCHHH-----HhccHHHHHHHHHHH-hhCCEEEEcCCCcchhHHH-
Confidence            7665431        112233567888887743222211     122456778888888 8999999999998873222 


Q ss_pred             hhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          158 TTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       158 ~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ......+|.+++|+.++..+...+.+.++.++..+.++.|+|+|+++.
T Consensus       673 ~~l~~~~D~vl~v~~~~~~~~~~~~~~~~~l~~~~~~~~GvvlN~~~~  720 (754)
T TIGR01005       673 RAAARLAIIMLLVTAYDRVVVECGRADAQGISRLNGEVTGVFLNMLDP  720 (754)
T ss_pred             HHhhhhCCeEEEEEEeCceeHHHHHHHHHHHHhcCCceEEEEecCCCh
Confidence            222335899999999999999999999999998888999999999974

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=99.93  E-value=1.1e-24  Score=187.04  Aligned_cols=242  Identities=20%  Similarity=0.225  Sum_probs=191.7

Q ss_pred             ccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCccc------cccc
Q 022525           26 KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMV------PIEN   99 (295)
Q Consensus        26 ~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~------~~~~   99 (295)
                      ....++++++|.+.|||+|-||+|.|+|+.++...++.|+++|+|+++++....++.++..++.+.....      ..+.
T Consensus        99 s~~~~~r~iafl~akgg~g~stlA~n~a~~l~~~~~~~v~L~DL~~~~G~~~~~l~~~~a~~i~~~~~~peRLDq~lld~  178 (366)
T COG4963          99 SIAQQGRELAFLGAKGGVGTSTLAHNLAKGLAILSGAAVLLVDLDLQGGTAALYLDQDPAFGIAEAVKQPERLDQVLLDS  178 (366)
T ss_pred             hhhhhceEEEEEeecCCcchHHHHHHHHHHHhhhcCCcEEEEEcCCCCcchhhhcCCCchhhHHHHhcCHHHhhHHHHHH
Confidence            3445589999999999999999999999999986799999999999999999999999888777652211      1111


Q ss_pred             CCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH
Q 022525          100 YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~  179 (295)
                      .-..+.+...+.+...............+..+++.++ ..||+||+|.|..+.  .|+...+..||.+++|++++..++.
T Consensus       179 ~~~~~~~~l~ll~a~~~~~~~~d~~~~~~~~Ll~~~~-~~~~~vV~Dlp~~~~--~~t~~vL~~Sd~iviv~e~sl~slR  255 (366)
T COG4963         179 LLTRLASGLKLLAAPTELAKNYDLKTGAVERLLDLLR-GSFDFVVVDLPNIWT--DWTRQVLSGSDEIVIVAEPSLASLR  255 (366)
T ss_pred             HHhccCCCceeecCCcchhhhcccccchHHHHHHHhh-ccCCeEEEcCCCccc--hHHHHHHhcCCeEEEEecccHHHHH
Confidence            1111111112223333333334445667888888888 899999999995555  7888999999999999999999999


Q ss_pred             HHHHHHHHHhcCC--CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcc-ccccccCCCceEEc
Q 022525          180 DARKGITMFSKVQ--VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMD-IRKGSDDGVPVVIS  256 (295)
Q Consensus       180 ~~~~~~~~l~~~~--~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~-~~~a~~~g~~i~~~  256 (295)
                      .++++++.+++.+  .+....|+|++..+..           ....++.+.+|++.+..+|+|+. +..|.+.|+++.+.
T Consensus       256 ~ak~lld~l~~~r~~~~~p~lv~n~~~~~~~-----------~~~~dl~~~~~i~~~~~~p~d~~~~~~A~n~g~~l~E~  324 (366)
T COG4963         256 NAKELLDELKRLRPNDPKPILVLNRVGVPKR-----------PEPSDLEEILGIESLLVLPFDPALFGDAANNGRMLSEV  324 (366)
T ss_pred             HHHHHHHHHHHhCCCCCCceEEeeecCCCCC-----------CCHHHHHHHhCCchhccccCCchhhhhhhccCcccccc
Confidence            9999999999854  4556799999984322           22789999999999999999988 66889999999999


Q ss_pred             CCCChHHHHHHHHHHHHHHHHHHHH
Q 022525          257 APDSTVSRAYGEVAVNVVNRLQELA  281 (295)
Q Consensus       257 ~~~s~~~~~~~~l~~~l~~~~~~~~  281 (295)
                      +|.+++++++..++..+...+...+
T Consensus       325 ~~~~~~~k~l~~la~~l~~~~~~~r  349 (366)
T COG4963         325 DPGSPAAKALAQLAQSLGGRISGER  349 (366)
T ss_pred             CCCChHHHHHHHHHHHhcCccCccc
Confidence            9999999999999999988743333

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=99.92  E-value=1.8e-25  Score=182.46  Aligned_cols=188  Identities=25%  Similarity=0.332  Sum_probs=124.7

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC--CccccccCcccccccCCceeecccccc
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ--KPEVTKDMKMVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (295)
                      |+|+|.|||+||||+|++||.+|++ +|++|++||+|+|.+.++.+++...  ..+....... + .......+     .
T Consensus         1 I~v~~~kGG~GKTt~a~~la~~la~-~g~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~-----~   72 (195)
T PF01656_consen    1 IAVTSGKGGVGKTTIAANLAQALAR-KGKKVLLIDLDPQAPNLSILFGVYDILREGLENANAI-L-KNFESQDI-----Y   72 (195)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHH-TTS-EEEEEESTTSHHHHHHTTCHHHHTTSSHGHHCH-H-ESCCHHHH-----H
T ss_pred             CEEEcCCCCccHHHHHHHHHhcccc-ccccccccccCcccccHHHHhcchhhccccceehhhh-h-hccchhhh-----h
Confidence            7899999999999999999999999 9999999999999988777765500  0000000000 0 00000000     0


Q ss_pred             CCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC
Q 022525          112 PSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV  191 (295)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  191 (295)
                      .     .... .....++.+++.+....||||||||||+++.  .....+..+|.+|+|+.++..++..+..+++.+++.
T Consensus        73 ~-----~~~~-~~~~~l~~~l~~l~~~~yD~iiiD~~~~~~~--~~~~~l~~ad~viv~~~~~~~~i~~~~~~~~~l~~~  144 (195)
T PF01656_consen   73 Q-----GEEY-LDPELLREILESLIKSDYDYIIIDTPPGLSD--PVRNALAAADYVIVPIEPDPSSIEGAERLIELLKRL  144 (195)
T ss_dssp             H-----HCHC-HHHHHHHHHHHHHHHTTSSEEEEEECSSSSH--HHHHHHHTSSEEEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred             h-----hhhh-hHHHHHHHHHHHhhhccccceeecccccccH--HHHHHHHhCceeeeecCCcHHHHHHHHHHHHHHHHh
Confidence            0     0000 2345678888875524599999999999985  455677799999999999999999999999999987


Q ss_pred             C--CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCc-EE-EeecCCcccc
Q 022525          192 Q--VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLK-VI-GEIPIEMDIR  244 (295)
Q Consensus       192 ~--~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-~~-~~Ip~~~~~~  244 (295)
                      +  .+.+++|+|+++..      ..... ....+.....++.+ ++ +.||++..+.
T Consensus       145 ~~~~~~~~vv~N~v~~~------~~~~~-~~~~~~~~~~~~~~~vl~~~Ip~~~~v~  194 (195)
T PF01656_consen  145 GKKLKIIGVVINRVDPG------NESKL-QEEIEEIERELYVPVVLPGVIPYSEAVS  194 (195)
T ss_dssp             THTEEEEEEEEEEETSC------CHHHH-HHHHHHHHHHCECCCBESEEEE--HHHH
T ss_pred             ccccceEEEEEeeeCCC------ccchH-HHHHHHHHHHhCCCcCcCCcCCCCCCCC
Confidence            6  55789999999732      11111 11233333433333 33 6899988764

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>PRK11519 tyrosine kinase; Provisional

Probab=99.92  E-value=7.8e-25  Score=210.14  Aligned_cols=188  Identities=15%  Similarity=0.236  Sum_probs=153.7

Q ss_pred             hhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC
Q 022525            6 RIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK   85 (295)
Q Consensus         6 ~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~   85 (295)
                      .+.|+++.+|+++.+....    ...++|+|+|.+||+||||+++|||..||+ .|+||++||+|++.|+++.++|..+.
T Consensus       505 ~~~Ea~r~lrt~l~~~~~~----~~~kvi~vts~~~geGKTt~a~nLA~~la~-~g~rvLlID~Dlr~~~~~~~~~~~~~  579 (719)
T PRK11519        505 LAIEAIRSLRTSLHFAMMQ----AQNNVLMMTGVSPSIGKTFVCANLAAVISQ-TNKRVLLIDCDMRKGYTHELLGTNNV  579 (719)
T ss_pred             HHHHHHHHHHHHhhhhccC----CCceEEEEECCCCCCCHHHHHHHHHHHHHh-CCCcEEEEeCCCCCCcHHHHhCCCCC
Confidence            4678999999999986532    236999999999999999999999999999 99999999999999999999998887


Q ss_pred             ccccccC--------cccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh
Q 022525           86 PEVTKDM--------KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT  157 (295)
Q Consensus        86 ~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~  157 (295)
                      .++.+..        .+.+....+++++|.|...+.+.     +......+..+++.++ ..||+|||||||.+.... .
T Consensus       580 ~gl~~~l~~~~~l~~~i~~~~~~~l~~lp~g~~~~~~~-----ell~s~~~~~ll~~l~-~~yD~ViiDtpP~~~v~D-a  652 (719)
T PRK11519        580 NGLSDILIGQGDITTAAKPTSIANFDLIPRGQVPPNPS-----ELLMSERFAELVNWAS-KNYDLVLIDTPPILAVTD-A  652 (719)
T ss_pred             CCHHHHhCCCCCHHHhecccCcCCEEEEeCCCCCCCHH-----HHhhHHHHHHHHHHHH-hcCCEEEEeCCCcccchH-H
Confidence            7776532        12233447888888875433322     2344678999999999 899999999999765322 2


Q ss_pred             hhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          158 TTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       158 ~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ......+|.+++|+..+......+...++.+++.+.+++|+|+|+++.
T Consensus       653 ~~l~~~~d~~l~Vvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~v~~  700 (719)
T PRK11519        653 AIVGRHVGTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSIFR  700 (719)
T ss_pred             HHHHHHCCeEEEEEeCCCCCHHHHHHHHHHHHhCCCCeEEEEEeCCcc
Confidence            233457899999999999999999999999999999999999999963

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=99.92  E-value=7.4e-25  Score=210.50  Aligned_cols=189  Identities=14%  Similarity=0.210  Sum_probs=152.1

Q ss_pred             hhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC
Q 022525            5 FRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      +.+.|.++.||+++.+....    ...++|+|+|.+||+||||+|+|||.+||. .|+||++||+|++.|.++..|+..+
T Consensus       509 s~~~Ea~r~lrt~l~~~~~~----~~~kvI~vtS~~~g~GKTtva~nLA~~la~-~G~rVLlID~D~r~~~l~~~~~~~~  583 (726)
T PRK09841        509 DSAVEAVRALRTSLHFAMME----TENNILMITGATPDSGKTFVSSTLAAVIAQ-SDQKVLFIDADLRRGYSHNLFTVSN  583 (726)
T ss_pred             CHHHHHHHHHHHHhhhhccC----CCCeEEEEecCCCCCCHHHHHHHHHHHHHh-CCCeEEEEeCCCCCCcHHHHcCCCC
Confidence            34678999999999886532    236999999999999999999999999999 9999999999999999998898887


Q ss_pred             CccccccCc--------ccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch
Q 022525           85 KPEVTKDMK--------MVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL  156 (295)
Q Consensus        85 ~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~  156 (295)
                      ..++.+...        +.+....++++++.|...+.+..     ....+.+..+++.++ ..||+|||||||.+.....
T Consensus       584 ~~gl~~~l~~~~~~~~~i~~~~~~~l~vl~~g~~~~~p~e-----ll~~~~~~~ll~~l~-~~yD~IIIDtPP~~~~~Da  657 (726)
T PRK09841        584 EHGLSEYLAGKDELNKVIQHFGKGGFDVITRGQVPPNPSE-----LLMRDRMRQLLEWAN-DHYDLVIVDTPPMLAVSDA  657 (726)
T ss_pred             CCCHHHHhCCCCCHHHheeccCCCCEEEEeCCCCCCCHHH-----HhCcHHHHHHHHHHH-hcCCEEEEeCCCccccchH
Confidence            777665421        22233457888888764433222     223568889999998 8999999999998764222


Q ss_pred             hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          157 TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       157 ~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      . .....+|.+++|+.++..+...+...++.+++.+.++.|+|+|+++.
T Consensus       658 ~-~la~~ad~~llVvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~~~~  705 (726)
T PRK09841        658 A-VVGRSVGTSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGVIK  705 (726)
T ss_pred             H-HHHHhCCeEEEEEeCCCCCHHHHHHHHHHHHhCCCceEEEEEeCccc
Confidence            2 22347899999999999999999999999999999999999999974

>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

Probab=99.92  E-value=4.3e-24  Score=170.16  Aligned_cols=230  Identities=26%  Similarity=0.306  Sum_probs=170.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc------------Ccccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD------------MKMVPIE   98 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~------------~~~~~~~   98 (295)
                      ++.|+|+ +|||.||||++.|++.+||+ .|+||++|-|||-..++..++|-...+.+-+.            ..+...+
T Consensus         1 mr~iAiY-GKGGIGKSTts~N~aAAla~-~GkkVl~vGCDPKaDSTr~Llgg~~ipTVld~lre~~~~e~~~ledvi~~G   78 (278)
T COG1348           1 MRQIAIY-GKGGIGKSTTSQNLAAALAE-LGKKVLIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVEDLELEDVIFTG   78 (278)
T ss_pred             CceEEEe-cCCCcCcchhHHHHHHHHHH-cCCeEEEEcCCCCcchHHHHhCCcccchHHHHHHhcCccccCCHHHheecc
Confidence            4789997 99999999999999999999 99999999999999998888884443333221            2344455


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhcc-C-CCccEEEEcCCCCCCccchhhhhhc--cCceEEEeeCCC
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD-W-GNLDILVIDMPPGTGDAQLTTTQTL--QLSGALIVSTPQ  174 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~-~-~~yD~iiiD~~~~~~~~~~~~~~l~--~ad~viiv~~~~  174 (295)
                      ..++.++..|   .+.+..-|.+.-....+ ++++.+. . +..|+||.|..+..-+..++.. +.  .||.+.||++..
T Consensus        79 f~Gv~CVEsG---GPepGvGCAGRGVitai-~~Le~lgaf~~~~DvviyDVLGDVVCGGFAmP-iReg~AdeiyIVtSge  153 (278)
T COG1348          79 FGGVKCVESG---GPEPGVGCAGRGVITAI-NLLEELGAFEEDLDVVIYDVLGDVVCGGFAMP-IREGYADEIYIVTSGE  153 (278)
T ss_pred             CCceEEeecC---CCCCCCCcccchHHHHH-HHHHHhCCccccCCEEEEeccCceeecceeee-hhcccCcEEEEEecCc
Confidence            6677777665   22333333333222222 2233332 1 4469999999876655444322 22  589999999999


Q ss_pred             cchHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCC
Q 022525          175 DVALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDG  250 (295)
Q Consensus       175 ~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g  250 (295)
                      ..++..+-+..+-+.+    .+...-|+|.|.-..          ....+.+.++.++.|.++++.||++..+..+...|
T Consensus       154 ~MalYAANNI~kgi~k~a~~~~~rLgGiIcNsr~~----------~~e~e~v~~fa~~igt~li~~vPr~~ivq~aE~~~  223 (278)
T COG1348         154 MMALYAANNIAKGIRKYAKTGGVRLGGIICNSRSV----------DRERELVEAFAERLGTQLIHFVPRDNIVQKAELNG  223 (278)
T ss_pred             hHHHHHHHHHHHHHHHHhhcCCcceeeEEecCCCc----------ccHHHHHHHHHHHhCCceEeeccchHHHHHHHHcC
Confidence            9988888777766654    345677888886431          12246689999999999999999999999999999


Q ss_pred             CceEEcCCCChHHHHHHHHHHHHHHHH
Q 022525          251 VPVVISAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       251 ~~i~~~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      +++++++|+|..+..|++||+.|++.-
T Consensus       224 kTvie~~P~s~~a~~yr~LA~~I~~n~  250 (278)
T COG1348         224 KTVIEYAPDSNQAEEYRELAKKILENE  250 (278)
T ss_pred             cchhhhCcchhHHHHHHHHHHHHHhCC
Confidence            999999999999999999999998744

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=99.89  E-value=2.5e-22  Score=147.17  Aligned_cols=102  Identities=29%  Similarity=0.359  Sum_probs=91.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccccc
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (295)
                      +|++.|.|||+||||++.|||..+++ . |++|+++|+|+|.++                                    
T Consensus         1 ~i~~~~~kgg~gkt~~~~~la~~~~~-~~~~~~~l~d~d~~~~~------------------------------------   43 (106)
T cd03111           1 VIAFIGAKGGVGATTLAANLAVALAK-EAGRRVLLVDLDLQFGD------------------------------------   43 (106)
T ss_pred             CEEEECCCCCCcHHHHHHHHHHHHHh-cCCCcEEEEECCCCCCC------------------------------------
Confidence            58999999999999999999999999 7 999999999999743                                    


Q ss_pred             CCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC
Q 022525          112 PSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV  191 (295)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  191 (295)
                                                   |+|||||||+++  .+....+..||.+++|+.++..++..+.++++.+++.
T Consensus        44 -----------------------------D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~~s~~~~~~~~~~l~~~   92 (106)
T cd03111          44 -----------------------------DYVVVDLGRSLD--EVSLAALDQADRVFLVTQQDLPSIRNAKRLLELLRVL   92 (106)
T ss_pred             -----------------------------CEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCChHHHHHHHHHHHHHHHc
Confidence                                         899999999998  4556778899999999999999999999999999887


Q ss_pred             CCC---eeeEEecc
Q 022525          192 QVP---ILGLVENM  202 (295)
Q Consensus       192 ~~~---~~~~ViN~  202 (295)
                      +.+   .+.+|+|+
T Consensus        93 ~~~~~~~~~lVvNr  106 (106)
T cd03111          93 DYSLPAKIELVLNR  106 (106)
T ss_pred             CCCCcCceEEEecC
Confidence            643   67789885

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=99.89  E-value=2.7e-22  Score=162.83  Aligned_cols=181  Identities=22%  Similarity=0.265  Sum_probs=122.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc-cccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP-EVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      |++|+|+|.|||+||||.+..||..|++ +|.+|.+||+||+.|... |-...... .+.+..          .+.    
T Consensus         1 M~vItf~s~KGGaGKTT~~~~LAs~la~-~G~~V~lIDaDpn~pl~~-W~~~a~~~~~~~~~~----------~V~----   64 (231)
T PF07015_consen    1 MPVITFASSKGGAGKTTAAMALASELAA-RGARVALIDADPNQPLAK-WAENAQRPGAWPDRI----------EVY----   64 (231)
T ss_pred             CCeEEEecCCCCCcHHHHHHHHHHHHHH-CCCeEEEEeCCCCCcHHH-HHHhccccCCCCCCe----------eEE----
Confidence            5899999999999999999999999999 999999999999996643 32221111 111111          110    


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHh
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFS  189 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~  189 (295)
                                 .......+...++......|||||||+.++-+  .+....+..+|.||||+.++......+.+.++++.
T Consensus        65 -----------~~~e~~~l~~~~e~a~~~~~d~VlvDleG~as--~~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~  131 (231)
T PF07015_consen   65 -----------EADELTILEDAYEAAEASGFDFVLVDLEGGAS--ELNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVR  131 (231)
T ss_pred             -----------eccchhhHHHHHHHHHhcCCCEEEEeCCCCCc--hhHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHH
Confidence                       00112355666665543569999999998777  55666777899999999999999999998888887


Q ss_pred             cC------CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEE-eecCCccccccccCC
Q 022525          190 KV------QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIG-EIPIEMDIRKGSDDG  250 (295)
Q Consensus       190 ~~------~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~-~Ip~~~~~~~a~~~g  250 (295)
                      +.      .+|. .+++|+++.....       -......++.+  ++|++- .+.....+.+.-..|
T Consensus       132 ~~~~~~~~~ip~-~Vl~Tr~~~~~~~-------~~~~~~~e~~~--~lpvl~t~l~eR~Af~~m~~~G  189 (231)
T PF07015_consen  132 RLEKAERRDIPA-AVLFTRVPAARLT-------RAQRIISEQLE--SLPVLDTELHERDAFRAMFSRG  189 (231)
T ss_pred             HHHHhhCCCCCe-eEEEecCCcchhh-------HHHHHHHHHHh--cCCccccccccHHHHHHHHHhc
Confidence            53      3344 6999998732111       01122344444  356653 444555565555556

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=99.88  E-value=6.9e-22  Score=152.28  Aligned_cols=107  Identities=36%  Similarity=0.458  Sum_probs=93.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      +|+|+|.|||+||||++.++|..+++ +|.+|+++|+|+|++++.                                   
T Consensus         1 ~i~~~~~kgg~gkt~~~~~~a~~~~~-~~~~~~~vd~D~~~~~~~-----------------------------------   44 (139)
T cd02038           1 IIAVTSGKGGVGKTNISANLALALAK-LGKRVLLLDADLGLANLD-----------------------------------   44 (139)
T ss_pred             CEEEEcCCCCCcHHHHHHHHHHHHHH-CCCcEEEEECCCCCCCCC-----------------------------------
Confidence            58999999999999999999999999 999999999999875431                                   


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC-
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV-  191 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~-  191 (295)
                                                 ||+||||+||+.+.  .....+..+|.+++|+.++..++..+.+.++.+.+. 
T Consensus        45 ---------------------------yd~VIiD~p~~~~~--~~~~~l~~aD~vviv~~~~~~s~~~~~~~l~~l~~~~   95 (139)
T cd02038          45 ---------------------------YDYIIIDTGAGISD--NVLDFFLAADEVIVVTTPEPTSITDAYALIKKLAKQL   95 (139)
T ss_pred             ---------------------------CCEEEEECCCCCCH--HHHHHHHhCCeEEEEcCCChhHHHHHHHHHHHHHHhc
Confidence                                       99999999999884  445677899999999999999999999999888653 


Q ss_pred             CCCeeeEEecccc
Q 022525          192 QVPILGLVENMSC  204 (295)
Q Consensus       192 ~~~~~~~ViN~~~  204 (295)
                      +...+++|+|++.
T Consensus        96 ~~~~~~lVvN~~~  108 (139)
T cd02038          96 RVLNFRVVVNRAE  108 (139)
T ss_pred             CCCCEEEEEeCCC
Confidence            3456789999986

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=99.85  E-value=2.7e-21  Score=163.73  Aligned_cols=205  Identities=19%  Similarity=0.201  Sum_probs=119.5

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccC------CCccccccCcc--cc------ccc
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID------QKPEVTKDMKM--VP------IEN   99 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~------~~~~~~~~~~~--~~------~~~   99 (295)
                      |.++++|||+||||+++++|..+|+ .|+||++||+|++ ++++..||.+      +..+..+....  .+      ...
T Consensus         2 ~~~~~gkgG~GKtt~a~~la~~~a~-~g~~vLlvd~D~~-~sl~~~~~~~~~~~~~~~~g~~~L~~~~id~~~~~~~~~~   79 (254)
T cd00550           2 YIFFGGKGGVGKTTISAATAVRLAE-QGKKVLLVSTDPA-HSLSDSFNQEFGKGPTPVKGVENLSAMEIDPQEALEEYRQ   79 (254)
T ss_pred             EEEEECCCCchHHHHHHHHHHHHHH-CCCCceEEeCCCc-ccHHHHhCCccCCCCcccccCCCceEEecCHHHHHHHHHH
Confidence            5667899999999999999999999 9999999999998 5889888876      22222221100  00      000


Q ss_pred             CCceeeccccccCC-----CCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc-chhh--------hhhc--c
Q 022525          100 YGVKCMSMGFLVPS-----SSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA-QLTT--------TQTL--Q  163 (295)
Q Consensus       100 ~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~-~~~~--------~~l~--~  163 (295)
                      .....+..+.....     ......++....-.+..+.+.+++.+||+|||||||.-... .+..        ..+.  .
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~Pg~~e~l~~~~~~~~l~~~~yD~VVvDtpPtg~tlrlL~lp~~l~~~~~~l~d~~  159 (254)
T cd00550          80 EVLEPIEANLLLEMLKGILEEELESPGIEEIAAFDEFSRYIDEAEYDVVVFDTAPTGHTLRLLSLPTVLSWAREILSDPE  159 (254)
T ss_pred             HHHHHHHhhccchhHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCCCEEEECCCCcHHHHHHHHhHHHHHHHHHHhcCCc
Confidence            00111111100000     00000011111222333333333368999999999942210 0110        0111  2


Q ss_pred             CceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCC-CCC--CccccCCchhhHHHHHhCCcEEEeecCC
Q 022525          164 LSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPH-CSE--PSFIFGKGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       164 ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~-~~~--~~~~~~~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                      .+.+++|+.|+..++.++.+.++.++..+.++.|+|+|++...... +.-  .....+...++++.+.++...+..||+-
T Consensus       160 ~~~~vlV~~p~~~~~~e~~r~~~~L~~~g~~v~gvV~N~v~~~~~~~~~~~~~~~~~q~~~l~~~~~~~~~~~i~~vp~~  239 (254)
T cd00550         160 RTSFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQLLPEDVTNCPFLEARREIQQKYLEEIEELFSDLPVAKLPLL  239 (254)
T ss_pred             ceEEEEEeCCChhHHHHHHHHHHHHHHCCCCCCEEEEecCcccccCCCHHHHHHHHHHHHHHHHHHHHhcCCCEEEeecC
Confidence            3579999999999999999999999999999999999999854331 000  0001112335566666554444466643

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=99.85  E-value=1.9e-20  Score=137.11  Aligned_cols=99  Identities=41%  Similarity=0.520  Sum_probs=86.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      +|+|.|.|||+||||++.+||+.+++ .|.+|+++|+|++                                        
T Consensus         1 ~i~~~~~kgG~Gkst~~~~la~~~~~-~~~~vl~~d~d~~----------------------------------------   39 (104)
T cd02042           1 VIAVANQKGGVGKTTTAVNLAAALAR-RGKRVLLIDLDPQ----------------------------------------   39 (104)
T ss_pred             CEEEEeCCCCcCHHHHHHHHHHHHHh-CCCcEEEEeCCCC----------------------------------------
Confidence            58999999999999999999999999 9999999999988                                        


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHH---HHh
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGIT---MFS  189 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~---~l~  189 (295)
                                                 ||+||||+||+.+.  .....+..+|.+++|+.++..++..+.++++   ..+
T Consensus        40 ---------------------------~d~viiD~p~~~~~--~~~~~l~~ad~viv~~~~~~~s~~~~~~~~~~~~~~~   90 (104)
T cd02042          40 ---------------------------YDYIIIDTPPSLGL--LTRNALAAADLVLIPVQPSPLDLDGLEKLLETLILED   90 (104)
T ss_pred             ---------------------------CCEEEEeCcCCCCH--HHHHHHHHCCEEEEeccCCHHHHHHHHHHHHHHHHHH
Confidence                                       99999999999874  4557788999999999999999999999887   332


Q ss_pred             c--CCCCeeeEEec
Q 022525          190 K--VQVPILGLVEN  201 (295)
Q Consensus       190 ~--~~~~~~~~ViN  201 (295)
                      .  ......++|+|
T Consensus        91 ~~~~~~~~~~vv~n  104 (104)
T cd02042          91 RLNPDLDILGILPT  104 (104)
T ss_pred             hcCCCCceEEEEeC
Confidence            2  34556778876

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments

Probab=99.82  E-value=5.2e-21  Score=155.82  Aligned_cols=134  Identities=34%  Similarity=0.429  Sum_probs=81.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (295)
                      .+|+|.|+||||||||+|+|||.+|+. .|++|.++|+|..++++..+++......-.+ ....|..  ....++     
T Consensus         1 HiIvV~sgKGGvGKSTva~~lA~aLa~-~G~kVg~lD~Di~q~S~~r~l~nr~~~~~~~-gi~Lp~p--~~~~L~-----   71 (261)
T PF09140_consen    1 HIIVVGSGKGGVGKSTVAVNLAVALAR-MGKKVGLLDLDIRQPSLPRYLENRAAWAQRD-GIELPVP--SHFFLP-----   71 (261)
T ss_dssp             EEEEEE-SSTTTTHHHHHHHHHHHHHC-TT--EEEEE--TTT-HHHHHHHHHHHHHHHH-T--------EEE-SS-----
T ss_pred             CEEEEecCCCCCcHHHHHHHHHHHHHH-CCCeEEEEecCCCCCCHHHHHhccchhHHhc-CcccCCc--cceeec-----
Confidence            489999999999999999999999999 9999999999999999998886432110000 0001100  000011     


Q ss_pred             CCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch
Q 022525          112 PSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s  177 (295)
                      .........+......+.+++..+. ..+||||||||++ ++ .....+...||.+|.|...+...
T Consensus        72 ~~~~~v~~~~~~~~~~L~q~l~~l~-~~~DfLVID~PGt-d~-~lsr~Ahs~ADtLiTPlNdSfvD  134 (261)
T PF09140_consen   72 PDQASVWEGENVEDKRLEQALADLE-GDLDFLVIDTPGT-DD-RLSRVAHSMADTLITPLNDSFVD  134 (261)
T ss_dssp             SHHHHTTS-HHHHHHHHHHHHHHHH-HH-SEEEEEE-SS-S--HHHHHHHHT-SEEEEEEESSHHH
T ss_pred             ccccccccCcchhHHHHHHHHHHHh-cCCCEEEEeCCCC-Cc-HHHHHHHHhCCEEEccCchhHHh
Confidence            1001111122233468888888888 8999999999954 43 56667777899988887665543

Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.

>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

Probab=99.82  E-value=2.3e-20  Score=154.67  Aligned_cols=162  Identities=22%  Similarity=0.264  Sum_probs=105.8

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC-------CcccccccCCCc-ccccc-Ccccccc------
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP-------SVPMMMKIDQKP-EVTKD-MKMVPIE------   98 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~-------~~~~~~g~~~~~-~~~~~-~~~~~~~------   98 (295)
                      |.++++|||+||||+++++|..+|+ .|++|++||+|++.+       ++..+++..+.. ..... .......      
T Consensus         1 ~~~~~g~~g~Gkt~~~~~la~~~a~-~g~~~~l~~~d~~~~~~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (217)
T cd02035           1 VIFFTGKGGVGKTTIAAATAVRLAE-EGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPEIAPNLYREEVDATRRVERAW   79 (217)
T ss_pred             CEEEeCCCCchHHHHHHHHHHHHHH-CCCcEEEEECCCCcccccccCCCchhhhccCChHHHHHHHHHHHHHHHHhhhcc
Confidence            3577899999999999999999999 999999999999983       333333321100 00000 0000000      


Q ss_pred             -cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCC-ccEEEEcCCCCCCcc-chhhhhhcc--CceEEEeeCC
Q 022525           99 -NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGN-LDILVIDMPPGTGDA-QLTTTQTLQ--LSGALIVSTP  173 (295)
Q Consensus        99 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~-yD~iiiD~~~~~~~~-~~~~~~l~~--ad~viiv~~~  173 (295)
                       ..+...++.+...+..        ...-.+.++++.++ .. ||+|||||||+.... .+....+..  +|.+++|+.+
T Consensus        80 ~~~~~~~~~~~~~~p~~--------~ell~~~~l~~~l~-~~~yD~IIiD~pp~~~~~~~l~~~~l~~~~~~~vllV~~p  150 (217)
T cd02035          80 GGEGGLMLELAAALPGI--------EELASLLAVFREFS-EGLYDVIVFDTAPTGHTLRLLVRELLTDPERTSFRLVTLP  150 (217)
T ss_pred             cchhhhHHhHhccCCCH--------HHHHHHHHHHHHHh-cCCCCEEEECCCCchHHHHHHHHHHccCCCceEEEEEeCC
Confidence             0011112221111111        11122677777777 55 999999999974321 122222322  4799999999


Q ss_pred             CcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          174 QDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       174 ~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +..+...+.+.++.++..+.+..++|+|++..
T Consensus       151 ~~~s~~~~~~~l~~l~~~~~~~~glVlN~~~~  182 (217)
T cd02035         151 EKLPLYETERAITELALYGIPVDAVVVNRVLP  182 (217)
T ss_pred             CccHHHHHHHHHHHHHHCCCCCCEEEEeCCcC
Confidence            99999999999999999999999999999874

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=99.80  E-value=2.6e-20  Score=146.74  Aligned_cols=145  Identities=25%  Similarity=0.294  Sum_probs=100.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccC---------Cc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENY---------GV  102 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~---------~~  102 (295)
                      |+|+|+|++||+||||+|.|||..||+ .|++|++||+|...+.+..+++..+..++.+..........         .+
T Consensus         1 k~i~v~s~~~g~G~t~~a~~lA~~la~-~~~~Vllid~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~l~~~~   79 (157)
T PF13614_consen    1 KVIAVWSPKGGVGKTTLALNLAAALAR-KGKKVLLIDFDFFSPSLSRLLGIEPERGLSDLLYDKKSGDENLSERDLSDHI   79 (157)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHH-TTT-EEEEE--SSS-HHHHHTTSSSSSSHHHHHTTSHC--C-HHHSHHHHHC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHh-cCCCeEEEECCCCCCCcccccccccccchhhHhcCccccccchhhhhHHHHh
Confidence            789999999999999999999999999 99999999999999999999998887566554222100000         00


Q ss_pred             e--eeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH
Q 022525          103 K--CMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       103 ~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~  179 (295)
                      .  -.....+.++............+.+..+++.++ ..||+||||+|+.... ......+..+|.+++|+.++..+.+
T Consensus        80 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~li~~l~-~~yd~IivD~~~~~~~-~~~~~~l~~~D~ii~v~~~~~~s~~  156 (157)
T PF13614_consen   80 YSDAHDGLDLLPPPSSPEDLEELTPEDVEELIDALK-EHYDYIIVDLPSSLSN-PDTQAVLELADKIILVVRPDVTSIR  156 (157)
T ss_dssp             EEESSTTEEEE--SSSSHHHHHHTSHHHHHHHHHHH-HHSSEEEEEEESTTTH-THHHHHHTTHSEEEEEEETTHHHHH
T ss_pred             eeccCCCeEEecCCCCCCchhhcCHHHHHHHHHHHH-HcCCEEEEECcCCccH-HHHHHHHHHCCEEEEEECCCccccc
Confidence            0  001111223333222222334578899999999 8999999999998885 3333467789999999999987754

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=99.67  E-value=2.3e-16  Score=136.54  Aligned_cols=198  Identities=20%  Similarity=0.190  Sum_probs=113.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc-----
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG-----  108 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  108 (295)
                      +.|+++||||||||+|+.+|..+|+ +|++||++..||.. ++...||.+-........     +..++..+..+     
T Consensus         3 ~~~~~GKGGVGKTT~aaA~A~~~A~-~G~rtLlvS~Dpa~-~L~d~l~~~~~~~~~~v~-----~~~~L~a~eid~~~~~   75 (305)
T PF02374_consen    3 ILFFGGKGGVGKTTVAAALALALAR-RGKRTLLVSTDPAH-SLSDVLGQKLGGEPTKVE-----GVPNLSAMEIDPEAEL   75 (305)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHH-TTS-EEEEESSTTT-HHHHHHTS--BSS-EEET-----TCSSEEEEE--HHHHH
T ss_pred             EEEEecCCCCCcHHHHHHHHHHHhh-CCCCeeEeecCCCc-cHHHHhCCcCCCCCeEec-----CCCCceeeecCHHHHH
Confidence            3455799999999999999999999 99999999999986 677777764221111111     00111111000     


Q ss_pred             ---------------------cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc----------ch-
Q 022525          109 ---------------------FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA----------QL-  156 (295)
Q Consensus       109 ---------------------~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~----------~~-  156 (295)
                                           .... ......++......+..+.+.+....||+||+||||.-..-          .+ 
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~PG~~E~~~l~~l~~~~~~~~~D~IVvDt~ptg~tLrlL~lP~~l~~~l  154 (305)
T PF02374_consen   76 EEYWEEVQKDLSSLLPLIGLERILD-EELSSLPGLDELAALLRLADLLESGEYDLIVVDTPPTGHTLRLLSLPERLRWWL  154 (305)
T ss_dssp             HHHHHHHHHGCSTCHHCHHHHHHHH-HHTTSSTTHHHHHHHHHHHHHHHHCSTSEEEEESSSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccchhhhhhHHHHH-HHHhcCCcHHHHHHHHHHHHHHHhCCCCEEEECCCCcHHHHHHHhHHHHHHHHH
Confidence                                 0000 00000022222333444444443489999999999853311          00 


Q ss_pred             h---------------h----------------------------hhhc--cCceEEEeeCCCcchHHHHHHHHHHHhcC
Q 022525          157 T---------------T----------------------------TQTL--QLSGALIVSTPQDVALIDARKGITMFSKV  191 (295)
Q Consensus       157 ~---------------~----------------------------~~l~--~ad~viiv~~~~~~s~~~~~~~~~~l~~~  191 (295)
                      .               .                            ..+.  ....+++|+.|+..++.++.+.+..+...
T Consensus       155 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lV~~pE~l~i~Et~r~~~~L~~~  234 (305)
T PF02374_consen  155 DRLLKLRRKIRSLARPLSGLGLGAVPLDEILEELEEMRERLERLRELLRDPERTSFRLVTNPEPLAIAETERLLTELKLY  234 (305)
T ss_dssp             HHHHHHHHCHHHHHHHHCHSHCCHHHHHHHHHHHHHHHHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhcchhhhhhcccccccchHHHHHHHHHHHHHHHHHHHHhcCCCCcEEEEEecCCcchHHHHHHHHHHHHhc
Confidence            0               0                            0111  12358999999999999999999999999


Q ss_pred             CCCeeeEEeccccCCCCCC-CC--CccccCCchhhHHHHHhCCcEEEeecC
Q 022525          192 QVPILGLVENMSCFICPHC-SE--PSFIFGKGGTHRTAAEMGLKVIGEIPI  239 (295)
Q Consensus       192 ~~~~~~~ViN~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~g~~~~~~Ip~  239 (295)
                      ++++-++|+|++-+..... ..  .....+...++++.+.+.-..+..+|+
T Consensus       235 gi~v~~vVvNrvlp~~~~~c~~~~~r~~~Q~~~l~~i~~~f~~~~v~~vp~  285 (305)
T PF02374_consen  235 GIPVDAVVVNRVLPEEEDDCPFCAARRKEQQKYLAEIEESFPDLPVVKVPL  285 (305)
T ss_dssp             T-EEEEEEEEEE-TTCSTTSHHHHHHHHHHHHHHHHHHHHTTTSEEEEEE-
T ss_pred             CCccCeEEEEccccccccchHHHHHHHHHHHHHHHHHHHHhcCCCEEEecC
Confidence            9999999999986432210 00  000011233666777665444446663

...

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.59  E-value=2e-14  Score=124.13  Aligned_cols=166  Identities=22%  Similarity=0.252  Sum_probs=104.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc---
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG---  108 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~---  108 (295)
                      ..|.++++||||||||+|+.+|..+|+ .|++|++|..||.+ ++...|+.+-........       .|++.+..+   
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~-~g~kvLlvStDPAh-sL~d~f~~elg~~~~~I~-------~nL~a~eiD~~~   72 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAE-SGKKVLLVSTDPAH-SLGDVFDLELGHDPRKVG-------PNLDALELDPEK   72 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHH-cCCcEEEEEeCCCC-chHhhhccccCCchhhcC-------CCCceeeecHHH
Confidence            345666899999999999999999999 99999999999987 777777662111110000       111111100   


Q ss_pred             ---------------cccC-------CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc----------ch
Q 022525          109 ---------------FLVP-------SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA----------QL  156 (295)
Q Consensus       109 ---------------~~~~-------~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~----------~~  156 (295)
                                     .+..       .......++......+..+.+.+...+||+||+||+|.-..-          .+
T Consensus        73 ~l~ey~~~v~~~~~~~~~~~~l~~~~~~e~~~~PGidE~~~l~~i~e~~~~~~yD~IV~DtaPTG~TLRlL~lP~~~~~~  152 (322)
T COG0003          73 ALEEYWDEVKDYLARLLRTRGLGGIYADELATLPGIDEALALLKILEYYVSGEYDVIVVDTAPTGHTLRLLSLPEVLGWY  152 (322)
T ss_pred             HHHHHHHHHHHHHHhhccccccchhHHHHHhhCCCHHHHHHHHHHHHHHhccCCCEEEEcCCChHHHHHHhccHHHHHHH
Confidence                           0000       011111233333445666666665588999999999843211          00


Q ss_pred             -h------hhh--------------------------------------hcc--CceEEEeeCCCcchHHHHHHHHHHHh
Q 022525          157 -T------TTQ--------------------------------------TLQ--LSGALIVSTPQDVALIDARKGITMFS  189 (295)
Q Consensus       157 -~------~~~--------------------------------------l~~--ad~viiv~~~~~~s~~~~~~~~~~l~  189 (295)
                       .      ...                                      +..  -..+.+|..|...++.++.+..+.+.
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~L~~~~~~~~~~~~~l~~~~~T~~~lV~~pe~l~l~e~~ra~~~l~  232 (322)
T COG0003         153 LEKLFKPRRKRMVKALKSLSTAAGSPLPDDAVLEALEELKERIADVREVLTNPDGTSFRLVSIPEKLSLYETKRAVERLS  232 (322)
T ss_pred             HHhhhhhHHHHHHHhhhhcccccCCcCcHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEEecccccchHHHHHHHHHHH
Confidence             0      000                                      000  12357778888888888888888888


Q ss_pred             cCCCCeeeEEeccccCC
Q 022525          190 KVQVPILGLVENMSCFI  206 (295)
Q Consensus       190 ~~~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.-++++|++-+.
T Consensus       233 ~~~i~v~~vi~n~~~p~  249 (322)
T COG0003         233 LYGIPVDAVIVNKILPD  249 (322)
T ss_pred             HcCCchheeeeeccccc
Confidence            88999888999987643

>cd03114 ArgK-like The function of this protein family is unkown

Probab=99.57  E-value=1e-13  Score=107.60  Aligned_cols=146  Identities=18%  Similarity=0.234  Sum_probs=82.8

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCc-ccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSV-PMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~-~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      |.+ .++||+||||++.+++..+++ .|.+|+++|+|++.+.. ..+++  ....+.+...  + ....+..++.+    
T Consensus         2 i~~-~G~~GsGKTt~~~~l~~~~~~-~g~~v~ii~~D~~~~~~~~~~~~--~~~~~~~~~~--~-~~~~~~~~~~~----   70 (148)
T cd03114           2 IGI-TGVPGAGKSTLIDALITALRA-RGKRVAVLAIDPSSPFSGGAILG--DRIRMERHAS--D-PGVFIRSLATR----   70 (148)
T ss_pred             EEE-ECCCCCcHHHHHHHHHHHHHH-CCCEEEEEEeCCCCCCcccchhc--CceEhhheec--C-CCceEEEcCCc----
Confidence            344 489999999999999999999 99999999999876432 11222  1111111100  0 01111112211    


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCC
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQ  192 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  192 (295)
                        .....    ......+.++.++...||+||||| +|.....  ...+..||.+++|+.|+...-..+.+. ..++.. 
T Consensus        71 --~~~~~----~~~~~~~~~~~~~~~~~D~iiIDt-aG~~~~~--~~~~~~Ad~~ivv~tpe~~D~y~~~k~-~~~~~~-  139 (148)
T cd03114          71 --GFLGG----LSRATPEVIRVLDAAGFDVIIVET-VGVGQSE--VDIASMADTTVVVMAPGAGDDIQAIKA-GIMEIA-  139 (148)
T ss_pred             --Ccccc----cchhHHHHHHHHHhcCCCEEEEEC-CccChhh--hhHHHhCCEEEEEECCCchhHHHHhhh-hHhhhc-
Confidence              00000    012233333444325799999999 6776433  356778999999999994433333322 222222 


Q ss_pred             CCeeeEEecccc
Q 022525          193 VPILGLVENMSC  204 (295)
Q Consensus       193 ~~~~~~ViN~~~  204 (295)
                       .  .+++|+++
T Consensus       140 -~--~~~~~k~~  148 (148)
T cd03114         140 -D--IVVVNKAD  148 (148)
T ss_pred             -C--EEEEeCCC
Confidence             2  37888864

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=99.54  E-value=4.2e-13  Score=114.44  Aligned_cols=165  Identities=18%  Similarity=0.160  Sum_probs=96.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCcccccccCCceeeccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      .+++|+|+ +++|+||||++++||..+++ .|++|++||+|++..... .+..      +.        ...++.+++..
T Consensus        71 ~~~vi~l~-G~~G~GKTTt~akLA~~l~~-~g~~V~li~~D~~r~~a~~ql~~------~~--------~~~~i~~~~~~  134 (272)
T TIGR00064        71 KPNVILFV-GVNGVGKTTTIAKLANKLKK-QGKSVLLAAGDTFRAAAIEQLEE------WA--------KRLGVDVIKQK  134 (272)
T ss_pred             CCeEEEEE-CCCCCcHHHHHHHHHHHHHh-cCCEEEEEeCCCCCHHHHHHHHH------HH--------HhCCeEEEeCC
Confidence            36899998 79999999999999999999 999999999998543210 0000      00        00112221111


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhh------hhc------cCceEEEeeCCCcc
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTT------QTL------QLSGALIVSTPQDV  176 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~------~l~------~ad~viiv~~~~~~  176 (295)
                      .    ..     +  ........+..+...+||+|||||||........+.      .+.      ..|.+++|+... .
T Consensus       135 ~----~~-----d--p~~~~~~~l~~~~~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~-~  202 (272)
T TIGR00064       135 E----GA-----D--PAAVAFDAIQKAKARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDAT-T  202 (272)
T ss_pred             C----CC-----C--HHHHHHHHHHHHHHCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECC-C
Confidence            0    00     0  012222222222227899999999987653222111      111      278889998886 3


Q ss_pred             hHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          177 ALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       177 s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .-..+.....+.+..  ++.++|+|+++.....          ...-.+...++.|+.
T Consensus       203 ~~~~~~~~~~f~~~~--~~~g~IlTKlDe~~~~----------G~~l~~~~~~~~Pi~  248 (272)
T TIGR00064       203 GQNALEQAKVFNEAV--GLTGIILTKLDGTAKG----------GIILSIAYELKLPIK  248 (272)
T ss_pred             CHHHHHHHHHHHhhC--CCCEEEEEccCCCCCc----------cHHHHHHHHHCcCEE
Confidence            444554444444333  4578999999843221          345566666676665

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.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=99.52  E-value=6.1e-14  Score=103.99  Aligned_cols=112  Identities=25%  Similarity=0.269  Sum_probs=74.9

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccCCCCC
Q 022525           37 ASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSP  116 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (295)
                      .++|||+||||++.++|..+++ +|++|++||+|+  +++...++......              ..++-.+........
T Consensus         4 ~~GkgG~GKTt~a~~la~~l~~-~g~~V~~id~D~--~~~~~~~~~~~~~~--------------~~~i~~g~~~~~~~g   66 (116)
T cd02034           4 ITGKGGVGKTTIAALLARYLAE-KGKPVLAIDADP--DDLPERLSVEVGEI--------------KLLLVMGMGRPGGEG   66 (116)
T ss_pred             EECCCCCCHHHHHHHHHHHHHH-CCCcEEEEECCc--hhhHHHHhhccCCc--------------eEEEEecccccCCCC
Confidence            4589999999999999999999 999999999999  34333333322100              000112211122222


Q ss_pred             CccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEe
Q 022525          117 VVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIV  170 (295)
Q Consensus       117 ~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv  170 (295)
                      ..+..   ...+++++..+....||++|+||++|+.  .+....+..+|.+++|
T Consensus        67 ~~~~~---n~~~~~~l~~~~~~~~~~vivDt~ag~e--~~~~~~~~~~d~vv~v  115 (116)
T cd02034          67 CYCPE---NALLNALLRHLVLTRDEQVVVDTEAGLE--HLGRGTAEGVDLLVVV  115 (116)
T ss_pred             CEehh---hHHHHHHHHHeEccCCCEEEEecHHHHH--HHHhhccccCCEEEEe
Confidence            22222   1267777777522899999999999998  6666666688998887

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>PRK10867 signal recognition particle protein; Provisional

Probab=99.50  E-value=6.7e-13  Score=119.36  Aligned_cols=165  Identities=22%  Similarity=0.207  Sum_probs=99.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +.+|.++ +..|+||||++++||..|++ . |++|++||+|++.+....-+..-             ....++++++.. 
T Consensus       100 p~vI~~v-G~~GsGKTTtaakLA~~l~~-~~G~kV~lV~~D~~R~aa~eQL~~~-------------a~~~gv~v~~~~-  163 (433)
T PRK10867        100 PTVIMMV-GLQGAGKTTTAGKLAKYLKK-KKKKKVLLVAADVYRPAAIEQLKTL-------------GEQIGVPVFPSG-  163 (433)
T ss_pred             CEEEEEE-CCCCCcHHHHHHHHHHHHHH-hcCCcEEEEEccccchHHHHHHHHH-------------HhhcCCeEEecC-
Confidence            4555554 79999999999999999999 7 99999999999876532112100             011222222211 


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh------hhhhccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT------TTQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~------~~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                           ..     ..........++..+...||+|||||++........      +......+.+++|+.+..  -+++..
T Consensus       164 -----~~-----~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~--gq~av~  231 (433)
T PRK10867        164 -----DG-----QDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMT--GQDAVN  231 (433)
T ss_pred             -----CC-----CCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEeccc--HHHHHH
Confidence                 00     011223334444443368999999999876421111      112224577788877643  345555


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+.+ .+++.|+|+|+.+....          ...+..+...++.|+.
T Consensus       232 ~a~~F~~-~~~i~giIlTKlD~~~r----------gG~alsi~~~~~~PI~  271 (433)
T PRK10867        232 TAKAFNE-ALGLTGVILTKLDGDAR----------GGAALSIRAVTGKPIK  271 (433)
T ss_pred             HHHHHHh-hCCCCEEEEeCccCccc----------ccHHHHHHHHHCcCEE
Confidence            5555543 45677999999984321          1336677777787765

>PRK00090 bioD dithiobiotin synthetase; Reviewed

Probab=99.49  E-value=1.9e-13  Score=113.91  Aligned_cols=191  Identities=12%  Similarity=0.042  Sum_probs=113.5

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccc-cccCc-ccccccCCceeecccccc
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV-TKDMK-MVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~  111 (295)
                      |.|++.-.|+|||+++++|+..|++ +|.+|.++-  |.+....... .+....+ ..... ..+......... .....
T Consensus         2 i~I~~t~t~~GKT~vs~~L~~~l~~-~g~~v~~~K--Pv~~g~~~~~-~~~d~~~~~~~~~~~~~~~~~~~~~~-~~~~s   76 (222)
T PRK00090          2 LFVTGTDTDVGKTVVTAALAQALRE-AGYSVAGYK--PVQSGCEETD-RNGDALALQRLSGLPLDYEDVNPYRF-EEPLS   76 (222)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHH-cCCceEEEe--eEecCCCCCC-CcHHHHHHHHHcCCCCChhhcCceee-CCCCC
Confidence            6788999999999999999999999 999998863  2221100000 0000000 00000 000000000000 00000


Q ss_pred             CCCC-CCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCce-------EEEeeCCCcchHHHHHH
Q 022525          112 PSSS-PVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSG-------ALIVSTPQDVALIDARK  183 (295)
Q Consensus       112 ~~~~-~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~-------viiv~~~~~~s~~~~~~  183 (295)
                      +... ..... ......+.+.++.++ ++||+||||+++++.....  ..+..+|.       +++|+.++..++..+..
T Consensus        77 p~~a~~~~~~-~~~~~~i~~~~~~l~-~~~D~viIEg~gg~~~~~~--~~~~~adl~~~l~~pvilV~~~~~~~i~~~~~  152 (222)
T PRK00090         77 PHLAAALEGV-AIDLEKISAALRRLA-QQYDLVLVEGAGGLLVPLT--EDLTLADLAKQLQLPVILVVGVKLGCINHTLL  152 (222)
T ss_pred             HHHHHHHhCC-CCCHHHHHHHHHHHH-hhCCEEEEECCCceeccCC--CCCcHHHHHHHhCCCEEEEECCCCcHHHHHHH
Confidence            0000 00001 122456677777777 8999999999988653221  11223343       78888888888888889


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCC
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                      .++.++..+.++.|+|+|+++...       ........+.+.+.++.++++.||+-
T Consensus       153 ~i~~l~~~~~~i~gvIlN~~~~~~-------~~~~~~~~~~l~~~~gi~vlg~ip~~  202 (222)
T PRK00090        153 TLEAIRARGLPLAGWVANGIPPEP-------GLRHAENLATLERLLPAPLLGELPYL  202 (222)
T ss_pred             HHHHHHHCCCCeEEEEEccCCCcc-------hhHHHHHHHHHHHHcCCCeEEecCCC
Confidence            898888888999999999987420       11122446777888899999999984

>PRK13886 conjugal transfer protein TraL; Provisional

Probab=99.48  E-value=1.1e-12  Score=108.71  Aligned_cols=49  Identities=33%  Similarity=0.308  Sum_probs=44.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMM   79 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~   79 (295)
                      |++++.+.++||||||||+|++||.++++ +|++|++||+|++++.+..+
T Consensus         1 m~~i~~i~~~KGGvGKSt~a~~la~~l~~-~g~~vl~iD~D~~n~~~~~~   49 (241)
T PRK13886          1 MAKIHMVLQGKGGVGKSFIAATIAQYKAS-KGQKPLCIDTDPVNATFEGY   49 (241)
T ss_pred             CCeEEEEecCCCCCcHHHHHHHHHHHHHh-CCCCEEEEECCCCCchhhhH
Confidence            46899999999999999999999999999 99999999999998765433

>TIGR00959 ffh signal recognition particle protein

Probab=99.47  E-value=3.6e-12  Score=114.63  Aligned_cols=166  Identities=19%  Similarity=0.202  Sum_probs=99.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+.|.++++..|+||||++++||..++ + .|++|++||+|.+.+....-+....             ...++++.... 
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~~~-~g~kV~lV~~D~~R~~a~~QL~~~a-------------~~~gvp~~~~~-  162 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLKKK-QGKKVLLVACDLYRPAAIEQLKVLG-------------QQVGVPVFALG-  162 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh-CCCeEEEEeccccchHHHHHHHHHH-------------HhcCCceEecC-
Confidence            356666679999999999999999987 6 8999999999998765321111000             00111111110 


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhh------hccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQ------TLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~------l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                          . .     ..........++.+....||+|||||++...........      ....|.+++|+.+..  -+++..
T Consensus       163 ----~-~-----~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~t--gq~~~~  230 (428)
T TIGR00959       163 ----K-G-----QSPVEIARRALEYAKENGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMT--GQDAVN  230 (428)
T ss_pred             ----C-C-----CCHHHHHHHHHHHHHhcCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccc--hHHHHH
Confidence                0 0     001122334444433278999999999866422211121      224678888887653  345555


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+. ..+++.|+|+|+.+....          ...+..+...++.|+.
T Consensus       231 ~a~~f~-~~v~i~giIlTKlD~~~~----------~G~~lsi~~~~~~PI~  270 (428)
T TIGR00959       231 TAKTFN-ERLGLTGVVLTKLDGDAR----------GGAALSVRSVTGKPIK  270 (428)
T ss_pred             HHHHHH-hhCCCCEEEEeCccCccc----------ccHHHHHHHHHCcCEE
Confidence            555554 234667999999984221          1347777777887765

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=99.46  E-value=1.3e-12  Score=93.81  Aligned_cols=93  Identities=41%  Similarity=0.561  Sum_probs=74.6

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccCCCC
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSS  115 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (295)
                      ++++++|+||||++.+||..|++ .|++|+++|                                               
T Consensus         3 ~~~g~~G~Gktt~~~~l~~~l~~-~g~~v~~~~-----------------------------------------------   34 (99)
T cd01983           3 VVTGKGGVGKTTLAANLAAALAK-RGKRVLLID-----------------------------------------------   34 (99)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEC-----------------------------------------------
Confidence            34566699999999999999999 999999999                                               


Q ss_pred             CCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch-hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhc---C
Q 022525          116 PVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL-TTTQTLQLSGALIVSTPQDVALIDARKGITMFSK---V  191 (295)
Q Consensus       116 ~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~-~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~---~  191 (295)
                                               |+||+|++++.+.... ....+..+|.+++|+.++..++....+..+....   .
T Consensus        35 -------------------------d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~~~~~~~~~~~~~~~~~~~~~~   89 (99)
T cd01983          35 -------------------------DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEALAVLGARRLTEVVLELAIE   89 (99)
T ss_pred             -------------------------CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCCchhhHHHHHHHHHHHHHhhcc
Confidence                                     8999999999885320 1455668999999999999999999888653332   3


Q ss_pred             CCCeeeEEec
Q 022525          192 QVPILGLVEN  201 (295)
Q Consensus       192 ~~~~~~~ViN  201 (295)
                      +....++|+|
T Consensus        90 ~~~~~~vv~N   99 (99)
T cd01983          90 GLRPVGVVVN   99 (99)
T ss_pred             CCceEEEEeC
Confidence            4556667766

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=99.43  E-value=6.9e-12  Score=112.24  Aligned_cols=165  Identities=17%  Similarity=0.144  Sum_probs=95.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +.+|+++ +..|+||||+++.||..+++ .|++|++|++|++.+.....+....+             ..++++....  
T Consensus       100 ~~vi~lv-G~~GvGKTTtaaKLA~~l~~-~G~kV~lV~~D~~R~aA~eQLk~~a~-------------~~~vp~~~~~--  162 (429)
T TIGR01425       100 QNVIMFV-GLQGSGKTTTCTKLAYYYQR-KGFKPCLVCADTFRAGAFDQLKQNAT-------------KARIPFYGSY--  162 (429)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCCEEEEcCcccchhHHHHHHHHhh-------------ccCCeEEeec--
Confidence            4677776 68999999999999999999 99999999999988654322211110             0111111100  


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhh------hhccCceEEEeeCCCcchHHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTT------QTLQLSGALIVSTPQDVALIDARKG  184 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~------~l~~ad~viiv~~~~~~s~~~~~~~  184 (295)
                         .      +........+.++.++...||+|||||++..........      .....+.+++|.++...  +.+...
T Consensus       163 ---~------~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~G--q~a~~~  231 (429)
T TIGR01425       163 ---T------ESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIG--QAAEAQ  231 (429)
T ss_pred             ---C------CCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccC--hhHHHH
Confidence               0      001122333344444425899999999986643211111      12235778888876542  223334


Q ss_pred             HHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          185 ITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       185 ~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .+.+.+ ..++-|+|+|+.|.....          ..+-.+....+.|+.
T Consensus       232 a~~F~~-~~~~~g~IlTKlD~~arg----------G~aLs~~~~t~~PI~  270 (429)
T TIGR01425       232 AKAFKD-SVDVGSVIITKLDGHAKG----------GGALSAVAATKSPII  270 (429)
T ss_pred             HHHHHh-ccCCcEEEEECccCCCCc----------cHHhhhHHHHCCCeE
Confidence            444432 245678999999943221          224455555565554

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK01077 cobyrinic acid a,c-diamide synthase; Validated

Probab=99.42  E-value=9.6e-12  Score=113.89  Aligned_cols=172  Identities=18%  Similarity=0.163  Sum_probs=107.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      |+.|.|++.++|+||||++++|+.+|++ +|++|..+..+++..... +.         ....-.+.  .+++.      
T Consensus         3 m~~i~I~gt~s~~GKT~it~~L~~~L~~-~G~~V~~fK~Gpd~~d~~-~~---------~~~~g~~~--~~ld~------   63 (451)
T PRK01077          3 MPALVIAAPASGSGKTTVTLGLMRALRR-RGLRVQPFKVGPDYIDPA-YH---------TAATGRPS--RNLDS------   63 (451)
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHh-CCCCcceeecCCCcccHH-HH---------HHHhCCCc--ccCCc------
Confidence            6789999999999999999999999999 999999998854321100 00         00000000  01110      


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCc---------cchhhhhhccCceEEEeeCCCcc--hHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGD---------AQLTTTQTLQLSGALIVSTPQDV--ALI  179 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~---------~~~~~~~l~~ad~viiv~~~~~~--s~~  179 (295)
                                .....+.+...+..+. ..||++||+...|+-+         ....+.....+..+ +|+.....  ++.
T Consensus        64 ----------~~~~~~~v~~~~~~~~-~~~D~vlVEGagGl~~g~~~~~~~~s~adiA~~l~~pvi-LV~~~~~~~~~~a  131 (451)
T PRK01077         64 ----------WMMGEELVRALFARAA-QGADIAVIEGVMGLFDGAGSDPDEGSTADIAKLLGAPVV-LVVDASGMAQSAA  131 (451)
T ss_pred             ----------eeCCHHHHHHHHHHhc-ccCCEEEEECCCccccCCccCCCCCCHHHHHHHhCCCEE-EEECCchHHHHHH
Confidence                      0112456777777777 7899999988865532         12333444444444 44444432  233


Q ss_pred             HHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccc
Q 022525          180 DARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       180 ~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                      .+...+..+ ..+.++.|+|+|++...       .   ......+..+..|++++++||+++.+.
T Consensus       132 ~l~~~~~~~-~~~i~i~GvI~N~v~~~-------~---~~~~l~~~l~~~gipvLG~IP~~~~l~  185 (451)
T PRK01077        132 ALVLGFATF-DPDVRIAGVILNRVGSE-------R---HYQLLREALERCGIPVLGALPRDAALA  185 (451)
T ss_pred             HHHHHHHHh-CCCCCEEEEEEECCCCh-------h---HHHHHHHHHHhcCCCEEEEeeCCcccC
Confidence            333333443 23678999999998621       0   012345556668999999999998874

>TIGR00347 bioD dethiobiotin synthase

Probab=99.41  E-value=1.2e-12  Score=104.06  Aligned_cols=157  Identities=15%  Similarity=0.132  Sum_probs=91.9

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcc-cccc-CcccccccCCceeeccccccCC
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPE-VTKD-MKMVPIENYGVKCMSMGFLVPS  113 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~  113 (295)
                      |++..+|+||||++.+|+.+|++ +|+||.+++.-..+..     ..+.... +... ....+....+. +.......+.
T Consensus         2 I~~t~~~~GKT~va~~L~~~l~~-~g~~V~~~kP~~~~~~-----~~d~d~~~i~~~~~~~~~~~~~~~-~~~~~~~~p~   74 (166)
T TIGR00347         2 VTGTDTGVGKTVASSALAAKLKK-AGYSVGYYKPVQTGIE-----KTNSDALLLQNISGTALDWDEVNP-YAFALPLSPH   74 (166)
T ss_pred             eecCCCCccHHHHHHHHHHHHHH-CCCcEEEEEeeeeCCC-----CCchHHHHHHHHcCCCCchhccCC-eeeCCCCChH
Confidence            57889999999999999999999 9999999743332211     0000000 0000 00000000000 0000000000


Q ss_pred             CCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc------hhhhhhccCceEEEeeCCCcchHHHHHHHHHH
Q 022525          114 SSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ------LTTTQTLQLSGALIVSTPQDVALIDARKGITM  187 (295)
Q Consensus       114 ~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~  187 (295)
                      ..............+...++.+. +.||+||||+++++....      ..+... ..+-+|+|+.+...++..+....+.
T Consensus        75 ~~~~~~~~~~~~~~i~~~~~~l~-~~~D~viid~~g~~~~~~~~~~~~~dl~~~-~~~~vilV~~~~~~~~~~~~~~~~~  152 (166)
T TIGR00347        75 IAADQEGRPIDLEELSKHLRTLE-QKYDFVLVEGAGGLCVPITEEYTTADLIKL-LQLPVILVVRVKLGTINHTLLTVEH  152 (166)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHH-hcCCEEEEEcCCccccCCCCCCcHHHHHHH-hCCCEEEEECCCCcHHHHHHHHHHH
Confidence            00000000122345677777777 899999999998754211      111111 2456888889999999999999999


Q ss_pred             HhcCCCCeeeEEec
Q 022525          188 FSKVQVPILGLVEN  201 (295)
Q Consensus       188 l~~~~~~~~~~ViN  201 (295)
                      +++.+.++.|+|+|
T Consensus       153 l~~~~~~i~gvv~N  166 (166)
T TIGR00347       153 ARQTGLTLAGVILN  166 (166)
T ss_pred             HHHCCCCeEEEEeC
Confidence            99999999999998

Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=99.41  E-value=1.3e-11  Score=98.76  Aligned_cols=161  Identities=21%  Similarity=0.222  Sum_probs=93.5

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSS  114 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (295)
                      .+..++.|+||||++.+++..+++ .|.+|++||+|+..+.....+.....             ..++++.+.      .
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~-~g~~v~~i~~D~~~~~~~~~l~~~~~-------------~~~~~~~~~------~   62 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKK-KGKKVLLVAADTYRPAAIEQLRVLGE-------------QVGVPVFEE------G   62 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCChHHHHHHHHhcc-------------cCCeEEEec------C
Confidence            344599999999999999999999 99999999999987654332221100             112222211      0


Q ss_pred             CCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhh------hccCceEEEeeCCCcchHHHHHHHHHHH
Q 022525          115 SPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQ------TLQLSGALIVSTPQDVALIDARKGITMF  188 (295)
Q Consensus       115 ~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~------l~~ad~viiv~~~~~~s~~~~~~~~~~l  188 (295)
                      ..     ......+...+.......||+||||+++...........      ....|.+++|+.+.. .. ........+
T Consensus        63 ~~-----~~~~~~~~~~~~~~~~~~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~-~~-~~~~~~~~~  135 (173)
T cd03115          63 EG-----KDPVSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMT-GQ-DAVNQAKAF  135 (173)
T ss_pred             CC-----CCHHHHHHHHHHHHHhCCCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCC-Ch-HHHHHHHHH
Confidence            00     011222333333332278999999999865311111111      123788888888743 22 333344443


Q ss_pred             -hcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          189 -SKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       189 -~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                       +..+  ..++|+|+++.....          ...-++....++|+.
T Consensus       136 ~~~~~--~~~viltk~D~~~~~----------g~~~~~~~~~~~p~~  170 (173)
T cd03115         136 NEALG--ITGVILTKLDGDARG----------GAALSIRAVTGKPIK  170 (173)
T ss_pred             HhhCC--CCEEEEECCcCCCCc----------chhhhhHHHHCcCeE
Confidence             3344  578999999843221          223347777777765

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK13768 GTPase; Provisional

Probab=99.41  E-value=1.9e-12  Score=109.56  Aligned_cols=161  Identities=14%  Similarity=0.140  Sum_probs=85.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      |+++|.|+ ++||+||||++.+++..++. .|++|++||+|++...++    ..+...+.+.......- .....-|.+.
T Consensus         1 ~~~~i~v~-G~~G~GKTt~~~~~~~~l~~-~g~~v~~i~~D~~~~~~~----~~~~~~i~~~~~~~~v~-~~~~l~p~~~   73 (253)
T PRK13768          1 MMYIVFFL-GTAGSGKTTLTKALSDWLEE-QGYDVAIVNLDPAVEYLP----YTPDFDVRDYVTAREIM-KKYGLGPNGA   73 (253)
T ss_pred             CcEEEEEE-CCCCccHHHHHHHHHHHHHh-cCCceEEEECCCccccCC----CCCCcchhhheeHHHHH-HHcCCCCchH
Confidence            35666665 66999999999999999999 999999999999864432    22222222111110000 0000001111


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch------hhhhhcc--CceEEEeeCCCcchHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL------TTTQTLQ--LSGALIVSTPQDVALIDA  181 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~------~~~~l~~--ad~viiv~~~~~~s~~~~  181 (295)
                      +...       .......+..+.+.+.....|++|+|+|+......+      ....+..  ++.++.++......-..-
T Consensus        74 ~~~~-------~~~~~~~~~~l~~~l~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d  146 (253)
T PRK13768         74 LIAS-------VDLLLTKADEIKEEIESLDADYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSD  146 (253)
T ss_pred             HHHH-------HHHHHHHHHHHHHHHHhcCCCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHH
Confidence            1111       011233444455555434569999999975442110      1111222  677888877644321111


Q ss_pred             HHHHHHHh-----cCCCCeeeEEeccccC
Q 022525          182 RKGITMFS-----KVQVPILGLVENMSCF  205 (295)
Q Consensus       182 ~~~~~~l~-----~~~~~~~~~ViN~~~~  205 (295)
                      .....++.     +.+.+++ +|+|+.+.
T Consensus       147 ~~~~~~l~~~~~~~~~~~~i-~v~nK~D~  174 (253)
T PRK13768        147 FVSLLLLALSVQLRLGLPQI-PVLNKADL  174 (253)
T ss_pred             HHHHHHHHHHHHHHcCCCEE-EEEEhHhh
Confidence            11112111     3566665 89999984

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=99.40  E-value=1e-11  Score=112.07  Aligned_cols=164  Identities=23%  Similarity=0.276  Sum_probs=100.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+.+|.++ +..|+||||++++||..|++ .|++|++||+|+..+.....+..     +        ....++++..   
T Consensus        94 ~p~vI~lv-G~~GsGKTTtaakLA~~L~~-~g~kV~lV~~D~~R~aa~eQL~~-----l--------a~~~gvp~~~---  155 (437)
T PRK00771         94 KPQTIMLV-GLQGSGKTTTAAKLARYFKK-KGLKVGLVAADTYRPAAYDQLKQ-----L--------AEKIGVPFYG---  155 (437)
T ss_pred             CCeEEEEE-CCCCCcHHHHHHHHHHHHHH-cCCeEEEecCCCCCHHHHHHHHH-----H--------HHHcCCcEEe---
Confidence            35677776 78999999999999999999 99999999999876532111110     0        0001111110   


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch------hhhhhccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL------TTTQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~------~~~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                         ...     .......+...++.+.  .+|+|||||+|.......      .+..+..+|.+++|+.+...  .++..
T Consensus       156 ---~~~-----~~d~~~i~~~al~~~~--~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g--q~av~  223 (437)
T PRK00771        156 ---DPD-----NKDAVEIAKEGLEKFK--KADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG--QQAKN  223 (437)
T ss_pred             ---cCC-----ccCHHHHHHHHHHHhh--cCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc--HHHHH
Confidence               000     1112344566666664  469999999986653211      23334568899999887664  33434


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+.+ .+++.|+|+|+++.....          ..+-.+....+.|+.
T Consensus       224 ~a~~F~~-~l~i~gvIlTKlD~~a~~----------G~~ls~~~~~~~Pi~  263 (437)
T PRK00771        224 QAKAFHE-AVGIGGIIITKLDGTAKG----------GGALSAVAETGAPIK  263 (437)
T ss_pred             HHHHHHh-cCCCCEEEEecccCCCcc----------cHHHHHHHHHCcCEE
Confidence            4444332 356779999999843221          336666666676654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=99.38  E-value=2.6e-11  Score=105.57  Aligned_cols=166  Identities=19%  Similarity=0.151  Sum_probs=96.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+.+|+++| ..|+||||++.+||..++. .|++|+++|+|++......-+     ..+        ....++.+++.. 
T Consensus       113 ~~~vi~lvG-pnGsGKTTt~~kLA~~l~~-~g~~V~Li~~D~~r~~a~eql-----~~~--------a~~~~i~~~~~~-  176 (318)
T PRK10416        113 KPFVILVVG-VNGVGKTTTIGKLAHKYKA-QGKKVLLAAGDTFRAAAIEQL-----QVW--------GERVGVPVIAQK-  176 (318)
T ss_pred             CCeEEEEEC-CCCCcHHHHHHHHHHHHHh-cCCeEEEEecCccchhhHHHH-----HHH--------HHHcCceEEEeC-
Confidence            468999985 8999999999999999999 999999999999764210000     000        011122222211 


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhh------------ccCceEEEeeCCCcch
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQT------------LQLSGALIVSTPQDVA  177 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l------------~~ad~viiv~~~~~~s  177 (295)
                           ...   + ........+..... ..||+|||||||........+..+            ...+.+++|+.+.. .
T Consensus       177 -----~~~---d-pa~~v~~~l~~~~~-~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~-g  245 (318)
T PRK10416        177 -----EGA---D-PASVAFDAIQAAKA-RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATT-G  245 (318)
T ss_pred             -----CCC---C-HHHHHHHHHHHHHh-CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCC-C
Confidence                 000   0 01122233333344 889999999998765221100000            13466777777774 3


Q ss_pred             HHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          178 LIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      -........+.+.  .++.++|+|+.+....          -..+-.+...++.|+.
T Consensus       246 ~~~~~~a~~f~~~--~~~~giIlTKlD~t~~----------~G~~l~~~~~~~~Pi~  290 (318)
T PRK10416        246 QNALSQAKAFHEA--VGLTGIILTKLDGTAK----------GGVVFAIADELGIPIK  290 (318)
T ss_pred             hHHHHHHHHHHhh--CCCCEEEEECCCCCCC----------ccHHHHHHHHHCCCEE
Confidence            3444443333322  3566899999984321          1346666677777765

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=99.38  E-value=2.2e-11  Score=106.85  Aligned_cols=160  Identities=18%  Similarity=0.158  Sum_probs=100.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +++|+++|+ +|+||||+++.||..+.. .|++|++||+|++..... .+-...              ...++.+...  
T Consensus       241 ~~vI~LVGp-tGvGKTTTiaKLA~~L~~-~GkkVglI~aDt~RiaAvEQLk~ya--------------e~lgipv~v~--  302 (436)
T PRK11889        241 VQTIALIGP-TGVGKTTTLAKMAWQFHG-KKKTVGFITTDHSRIGTVQQLQDYV--------------KTIGFEVIAV--  302 (436)
T ss_pred             CcEEEEECC-CCCcHHHHHHHHHHHHHH-cCCcEEEEecCCcchHHHHHHHHHh--------------hhcCCcEEec--
Confidence            578888866 999999999999999999 999999999998862211 111000              0011222110  


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccC-CCccEEEEcCCCCCCccchhhhhh------ccCceEEEeeCCCcchHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDW-GNLDILVIDMPPGTGDAQLTTTQT------LQLSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~-~~yD~iiiD~~~~~~~~~~~~~~l------~~ad~viiv~~~~~~s~~~~~  182 (295)
                          .         ....+...+..++. .+||+|||||++........+..+      ..-+.+++|+++.. .-.++.
T Consensus       303 ----~---------d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATt-k~~d~~  368 (436)
T PRK11889        303 ----R---------DEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASM-KSKDMI  368 (436)
T ss_pred             ----C---------CHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCcc-ChHHHH
Confidence                0         13455666666651 369999999997654322111111      12366777766543 345566


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..++.+..  .++-++|++++|....          -..+-.+....+.|+.
T Consensus       369 ~i~~~F~~--~~idglI~TKLDET~k----------~G~iLni~~~~~lPIs  408 (436)
T PRK11889        369 EIITNFKD--IHIDGIVFTKFDETAS----------SGELLKIPAVSSAPIV  408 (436)
T ss_pred             HHHHHhcC--CCCCEEEEEcccCCCC----------ccHHHHHHHHHCcCEE
Confidence            67777765  5667899999994322          1346667777776664

>KOG2825 consensus Putative arsenite-translocating ATPase [Inorganic ion transport and metabolism]

Probab=99.37  E-value=3e-12  Score=103.95  Aligned_cols=172  Identities=19%  Similarity=0.179  Sum_probs=102.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC------ccccccCc--ccccccCCc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK------PEVTKDMK--MVPIENYGV  102 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~------~~~~~~~~--~~~~~~~~~  102 (295)
                      ..-+.|+++||||||||.+..||..||+ -+.+||+|..||.+ +++-.|+.+-.      .++.....  +-|.  ..+
T Consensus        18 slKwifVGGKGGVGKTTcs~sLAvqla~-~r~~vLiISTDPAH-NlSDAF~qkftk~pt~V~Gf~nLfAMEIDp~--~e~   93 (323)
T KOG2825|consen   18 SLKWIFVGGKGGVGKTTCSCSLAVQLAK-VRESVLIISTDPAH-NLSDAFSQKFTKTPTKVEGFENLFAMEIDPN--VEM   93 (323)
T ss_pred             eeeEEEEcCcCCcCccchhhHHHHHHhc-cCCceEEeecCccc-chHHHHHHHhcCCCccccChhhheeeecCCc--hhh
Confidence            4667788999999999999999999999 89999999999998 55544432211      11111100  0010  000


Q ss_pred             eeeccccccCCCCCC------------ccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc-ch-------------
Q 022525          103 KCMSMGFLVPSSSPV------------VWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA-QL-------------  156 (295)
Q Consensus       103 ~~~~~~~~~~~~~~~------------~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~-~~-------------  156 (295)
                      .-++...........            ..++....-.+..+++.++.-+||+||+||+|.-..- .+             
T Consensus        94 ~~~~~m~~~~~~n~~~~g~g~l~e~~~~~Pgideamsfae~~klvk~~~F~~vVFDTAPTGHTLRlL~fP~~lek~lgKl  173 (323)
T KOG2825|consen   94 GDMPEMFGNAANNEGSDGKGMLQELANAFPGIDEAMSFAEVMKLVKGMNFDVVVFDTAPTGHTLRLLQFPTTLEKGLGKL  173 (323)
T ss_pred             hhhHHHhhcccccccccchhHHHHHHhcCCChhHHHhHHHHHHHhhccccceEEeccCCCcceehhhccchHHHHHHHHH
Confidence            000000000000000            0011222223444444444457999999999843210 00             


Q ss_pred             ---------------hhhhh----------------------------ccCceEEEeeCCCcchHHHHHHHHHHHhcCCC
Q 022525          157 ---------------TTTQT----------------------------LQLSGALIVSTPQDVALIDARKGITMFSKVQV  193 (295)
Q Consensus       157 ---------------~~~~l----------------------------~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~  193 (295)
                                     ....+                            -.+...|+|+.+...|+.++.|.+..+.+.++
T Consensus       174 ~~l~~k~~pm~sq~~sm~g~~~~~~~~l~~kle~~~~~i~~vn~qFkdpd~TtFVcVcI~eflslyEteRliqeL~k~~i  253 (323)
T KOG2825|consen  174 LSLKNKIGPMLSQMGSMFGMEDAGADDLAGKLEELLEVIEKVNEQFKDPDCTTFVCVCIAEFLSLYETERLIQELAKQGI  253 (323)
T ss_pred             HHHHHHHHHHHHHHhhhhccccCCHHHHHHHHHHHHHHHHHHHHHcCCCCCceEEEEEHHHHHhHHHHHHHHHHHHhcCC
Confidence                           00000                            02345799999999999999999999999998


Q ss_pred             CeeeEEeccccCC
Q 022525          194 PILGLVENMSCFI  206 (295)
Q Consensus       194 ~~~~~ViN~~~~~  206 (295)
                      +.=.+|+|+.-..
T Consensus       254 dthnIIVNQLL~~  266 (323)
T KOG2825|consen  254 DTHNIIVNQLLFP  266 (323)
T ss_pred             cccceeeeeccCC
Confidence            8888999987543

>PRK12374 putative dithiobiotin synthetase; Provisional

Probab=99.36  E-value=5e-11  Score=99.75  Aligned_cols=194  Identities=15%  Similarity=0.099  Sum_probs=116.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcc-------cccccCCc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKM-------VPIENYGV  102 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~-------~~~~~~~~  102 (295)
                      |++.|.|++.-.|+|||+++..|+..|.+ +|.+|..+  -|.+....   .......-.|...+       .+......
T Consensus         1 m~~~ifIt~t~t~vGKT~vt~~L~~~l~~-~g~~v~~~--KPi~~g~~---~~~~~~~~~D~~~l~~~~~~~~~~~~~~p   74 (231)
T PRK12374          1 MLKRFFITGTDTSVGKTVVSRALLQALAS-QGKTVAGY--KPVAKGSK---ETPEGLRNKDALVLQSVSSIELPYEAVNP   74 (231)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEE--CccccCCc---cCCCCCchHHHHHHHHhcCCCCCHHhccC
Confidence            35679999999999999999999999999 99999987  44332211   00000000011000       01110010


Q ss_pred             eeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch---hh--hhhccCceEEEeeCCCcch
Q 022525          103 KCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL---TT--TQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~---~~--~~l~~ad~viiv~~~~~~s  177 (295)
                      ..+     .+.............+.+.+.++.++ ..||+||||+.+|+.....   ..  .....---+++|+.....+
T Consensus        75 ~~~-----~~~~a~~~~~~~i~~~~i~~~~~~l~-~~~D~VlVEGaGgl~~p~~~~~~~~d~~~~~~~pvilV~~~~lg~  148 (231)
T PRK12374         75 IAL-----SEEESSVAHSCPINYTLMSNGLANLS-EKVDHVVVEGTGGWRSLMNDLRPLSEWVVQEQLPVLMVVGIQEGC  148 (231)
T ss_pred             eec-----CCCcChHHcCCcCCHHHHHHHHHHHH-hhCCEEEEECCCCcceeccCcccHHHHHHHhCCCEEEEECCCcCh
Confidence            001     01100001111122244666666677 8999999999986543211   00  1111123467777777778


Q ss_pred             HHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccc
Q 022525          178 LIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDI  243 (295)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~  243 (295)
                      +..+.-..+.+...++++.|+|+|+++....        ...+..+.+.+..+.++++.||+.+.+
T Consensus       149 in~~lLt~~~l~~~~~~~~gvV~N~~~~~~~--------~~~~~~~~l~~~~~~~~lg~iP~~~~~  206 (231)
T PRK12374        149 INHALLTAQAIANDGLPLIGWVANRINPGLA--------HYAEIIDVLGKKLPAPLIGELPYLPRA  206 (231)
T ss_pred             HHHHHHHHHHHHhCCCcEEEEEEeCccCchh--------hhhhHHHHHHHhcCCCEEEEeCCCCCC
Confidence            9999999999988899999999999874211        011234556666789999999997654

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.29  E-value=1.6e-10  Score=101.22  Aligned_cols=161  Identities=17%  Similarity=0.191  Sum_probs=97.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +++|+|++++ |+||||++++||..+.. .|++|.+|++|++.......+....             ...++.+..    
T Consensus       206 ~~ii~lvGpt-GvGKTTt~akLA~~l~~-~g~~V~lItaDtyR~gAveQLk~ya-------------e~lgvpv~~----  266 (407)
T PRK12726        206 HRIISLIGQT-GVGKTTTLVKLGWQLLK-QNRTVGFITTDTFRSGAVEQFQGYA-------------DKLDVELIV----  266 (407)
T ss_pred             CeEEEEECCC-CCCHHHHHHHHHHHHHH-cCCeEEEEeCCccCccHHHHHHHHh-------------hcCCCCEEe----
Confidence            6899998875 99999999999999988 9999999999998753221111100             001111110    


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhcc-CCCccEEEEcCCCCCCccchhhhh------hccCceEEEeeCCCcchHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVD-WGNLDILVIDMPPGTGDAQLTTTQ------TLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~-~~~yD~iiiD~~~~~~~~~~~~~~------l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                       .          .....+...++.++ ...||+|||||++........+..      ....+.+++|.++. ....++..
T Consensus       267 -~----------~dp~dL~~al~~l~~~~~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag-~~~~d~~~  334 (407)
T PRK12726        267 -A----------TSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSG-MKSADVMT  334 (407)
T ss_pred             -c----------CCHHHHHHHHHHHHhcCCCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCc-ccHHHHHH
Confidence             0          01345666666654 157999999999764321111111      11335656666553 34445555


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+.  .+++-++|+++.|.....          ..+-.+....|.|+.
T Consensus       335 i~~~f~--~l~i~glI~TKLDET~~~----------G~~Lsv~~~tglPIs  373 (407)
T PRK12726        335 ILPKLA--EIPIDGFIITKMDETTRI----------GDLYTVMQETNLPVL  373 (407)
T ss_pred             HHHhcC--cCCCCEEEEEcccCCCCc----------cHHHHHHHHHCCCEE
Confidence            555544  345668999999943221          346666777777665

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=99.29  E-value=1.8e-10  Score=98.11  Aligned_cols=226  Identities=14%  Similarity=0.050  Sum_probs=121.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      |++|+|++.| |+||||++.+|+..|++ +| +|.+|+.|+....     ..+.    .|.......+......++...+
T Consensus         1 M~~i~i~G~~-gSGKTTLi~~Li~~L~~-~G-~V~~IKhd~h~~~-----~~~g----~Ds~~~~~aGa~~v~~~s~~~~   68 (274)
T PRK14493          1 MKVLSIVGYK-ATGKTTLVERLVDRLSG-RG-RVGTVKHMDTERL-----NPDG----TDTGRHFDAGADVVYGLTDGEW   68 (274)
T ss_pred             CcEEEEECCC-CCCHHHHHHHHHHHHHh-CC-CEEEEEEcCCCcC-----CCCC----CCcHHHHHCCCcEEEEecCCeE
Confidence            5799999885 99999999999999999 99 8999999985411     1110    0000000000000111111000


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCc-eEEEeeCCCcchHHHHHHHHHHH-
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLS-GALIVSTPQDVALIDARKGITMF-  188 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad-~viiv~~~~~~s~~~~~~~~~~l-  188 (295)
                      ..     ...    ...+..+++.+. ..+|+||+|+.+.....-+....+..+| .+++|+.|++..+.++....+.. 
T Consensus        69 ~~-----~~~----~~~l~~~l~~l~-~~~D~vlVEG~k~~~~pki~v~~~~~~~~~~l~p~~~s~~d~~~lve~~~~~~  138 (274)
T PRK14493         69 VA-----SGR----DRSLDDALDDLA-PGMDYAVVEGFKDSRLPKVVLGDMDADSDVVARAPTAADLDTEDLVAALESQP  138 (274)
T ss_pred             EE-----Eec----CCCHHHHHHhhC-cCCCEEEEECCCCCCCCEEEEEecccCCcEEEecCCCCccCHHHHHHHHHhcC
Confidence            00     000    123666666666 6799999999987664344455555677 89999998888755554433322 


Q ss_pred             ------------hc-CCCCeeeEEeccccCCC--CC-CCCCccccC------------CchhhHHHHHhCCcEEEeecCC
Q 022525          189 ------------SK-VQVPILGLVENMSCFIC--PH-CSEPSFIFG------------KGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       189 ------------~~-~~~~~~~~ViN~~~~~~--~~-~~~~~~~~~------------~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                                  .. ...+..|.+.+.....+  .. ....-..+.            ....+++.+++++.-+..+.+.
T Consensus       139 ~~l~~~~li~~~~~~~~~~~~GAi~~F~G~VR~r~~~~g~~v~~L~ye~y~~~A~~~l~~I~~e~~~~~~~~~v~v~Hr~  218 (274)
T PRK14493        139 PYVTLESLVAKVKRSPDADKAGAIATFTGRVRAKEDADDEPTEYLEFEKYDGVADERMAAIREELKQRDGVFEVLLHHRT  218 (274)
T ss_pred             CCCCHHHHHHHHhccCCCCCCcEEEEEEeEEEccccCCCCcEEEEEEEeCCHHHHHHHHHHHHHHHHhCCCceEEEEEee
Confidence                        11 11111133333222111  00 000000000            0124455556676555555555


Q ss_pred             ccccccccCCCceEEcCCCChHHHHHHHHHHHHHHHHHHHHH
Q 022525          241 MDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAK  282 (295)
Q Consensus       241 ~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~~~~~  282 (295)
                      ..+    .-|.+++...-.++-..+.-+.++++++++..+.+
T Consensus       219 G~l----~vge~~v~v~v~a~hR~~af~a~~~~id~lK~~~p  256 (274)
T PRK14493        219 GVI----EAGEDIVFVVVLAGHRQEAFRAVSDGIDRLKDEVP  256 (274)
T ss_pred             ccc----cCCCeEEEEEEecCCHHHHHHHHHHHHHHHhhcCC
Confidence            554    55666666544445555666677777777765544

>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A

Probab=99.28  E-value=2.6e-11  Score=99.23  Aligned_cols=186  Identities=17%  Similarity=0.205  Sum_probs=108.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeec-cccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMS-MGFL  110 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  110 (295)
                      |.|.|++...|+|||+++..|+.+|.+ +|.+|.++--=.++..        ...   |...+..........-. ....
T Consensus         1 r~i~I~~t~t~vGKT~vslgL~~~l~~-~g~~v~~~KPi~~~~~--------~d~---d~~~~~~~~~~~~~~~~~~~~~   68 (199)
T PF13500_consen    1 RTIFITGTDTGVGKTVVSLGLARALRR-RGIKVGYFKPIQTGPE--------DDE---DAELIRELFGLSEPPDDPSPYT   68 (199)
T ss_dssp             -EEEEEESSSSSSHHHHHHHHHHHHHH-TTSEEEEEEEEEESCC--------CSS---HHHHHHHHCCTCCCHHHHECEE
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHh-CCCceEEEeeeEecCC--------CCc---hHHHHHHHhCCCcccccccccc
Confidence            568899999999999999999999999 9999987732211111        000   10000000000000000 0000


Q ss_pred             cCCC--CCCccCCchHHHHHHHH-HHhccCCCccEEEEcCCCCCCcc------chhhhhhccCceEEEeeCCCcchHHHH
Q 022525          111 VPSS--SPVVWRGPMVMSALRKM-SREVDWGNLDILVIDMPPGTGDA------QLTTTQTLQLSGALIVSTPQDVALIDA  181 (295)
Q Consensus       111 ~~~~--~~~~~~~~~~~~~l~~~-~~~l~~~~yD~iiiD~~~~~~~~------~~~~~~l~~ad~viiv~~~~~~s~~~~  181 (295)
                      ....  .............+.++ ++.+. ..+|++||+...+....      +..+.....+ -+|+|......++..+
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~i~~~~l~-~~~D~vlVEGag~~~~~~~~~~~n~dia~~L~a-~vIlV~~~~~g~i~~~  146 (199)
T PF13500_consen   69 FDEPASPHLAAELEGVDIDLERIIYKELA-EEYDVVLVEGAGGLMVPIFSGDLNADIAKALGA-PVILVASGRLGTINHT  146 (199)
T ss_dssp             ESSSS-HHHHHHHHT----HHHHHHHHCH-TTTCEEEEEESSSTTSECCTTEEHHHHHHHHT--EEEEEEESSTTHHHHH
T ss_pred             cCcccCHHHHhhccCCcccHHHHHHHHHh-hcCCEEEEeCCcccCcccccChHHHHHHHHcCC-CEEEEeCCCCCCHHHH
Confidence            0000  00000000000113333 46777 89999999999876532      1222333344 4666777777799999


Q ss_pred             HHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccc
Q 022525          182 RKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       182 ~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                      ...++.++..+.++.|+|+|+++..             +..+.+.+..++++++.||+++.+.
T Consensus       147 l~~~~~~~~~g~~v~GvI~N~~~~~-------------~~~~~l~~~~~i~vlg~iP~~~~L~  196 (199)
T PF13500_consen  147 LLTIEALKQRGIRVLGVILNRVPEP-------------ENLEALREKSGIPVLGVIPEDPDLS  196 (199)
T ss_dssp             HHHHHHHHCTTS-EEEEEEEECTCC-------------HHHHHHHHHHCCEECE---SSTT--
T ss_pred             HHHHHHHHhcCCCEEEEEEECCCCH-------------HHHHHHHHhCCCCEEEECCCCcccc
Confidence            9999999999999999999997621             4688888999999999999999874

...

>TIGR00313 cobQ cobyric acid synthase CobQ

Probab=99.26  E-value=2.5e-10  Score=104.94  Aligned_cols=196  Identities=15%  Similarity=0.162  Sum_probs=109.5

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc-------CcccccccCCceeec
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD-------MKMVPIENYGVKCMS  106 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~-------~~~~~~~~~~~~~~~  106 (295)
                      |.|++...++|||++++.|+..|++ +|.+|..+  .+++.+.......+. ....+.       ....|....+...+.
T Consensus         1 ~~I~GT~t~vGKT~v~~~L~~~l~~-~G~~v~~f--Kp~~~~~~s~~~~~~-~e~~~a~~~qa~a~~~~~~~~~nPv~lk   76 (475)
T TIGR00313         1 IMVVGTTSSAGKSTLTAGLCRILAR-RGYRVAPF--KSQNMSLNSFVTKEG-GEIAIAQATQALAAGIEPSVHMNPILLK   76 (475)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHHh-CCCeEEEE--CCcccccCccccCCC-chhHHHHHHHHHhCCCCchhccCCEEeC
Confidence            4688999999999999999999999 99999977  555322222211111 001000       011121222222221


Q ss_pred             c-----------ccccCCCCCC-c--cCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc--------chhhhhhccC
Q 022525          107 M-----------GFLVPSSSPV-V--WRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA--------QLTTTQTLQL  164 (295)
Q Consensus       107 ~-----------~~~~~~~~~~-~--~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~--------~~~~~~l~~a  164 (295)
                      .           +......... .  .......+.+.+.+..+. ..||+||||+++++.+.        ...+..+..+
T Consensus        77 ~~~~~~s~~i~~g~~~~~~~a~~~~~~~~~~~~~~i~~~~~~l~-~~~D~vIIEGaGGl~~~~~~~~d~s~~~lA~~l~a  155 (475)
T TIGR00313        77 PKGNFTSQVIVHGRAVGDMNYQEYYKNKVDFFLKAIKESLEILA-REYDYVVIEGAGSPAEINLLKRDLANMRIAELANA  155 (475)
T ss_pred             cCCCCcCcEEEcCcccCcCCHHHHhhhhhHHHHHHHHHHHHHHH-hcCCEEEEECCCCccccccCcCCchHHHHHHHhCC
Confidence            1           1100000000 0  001234566677777777 78999999999876531        1233334456


Q ss_pred             ceEEEeeCCCcc-hHHHHHHHHHHHhcC-CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcc
Q 022525          165 SGALIVSTPQDV-ALIDARKGITMFSKV-QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMD  242 (295)
Q Consensus       165 d~viiv~~~~~~-s~~~~~~~~~~l~~~-~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~  242 (295)
                      +.+++ +..... .+..+...+..++.. +..+.|+|+|+++..       . ...+...+.+.+..|+++++++|+++.
T Consensus       156 pVILV-~d~~~g~~~a~i~gt~~~l~~~~~~~i~GvIlNrv~~~-------~-~~~~~~~~~l~e~~gipvLG~ip~~~~  226 (475)
T TIGR00313       156 DAILV-ADIDRGGVFASIYGTLKLLPENWRKLIKGIVINKFRGN-------V-DVLKSGIEKLEELTGIPVLGVLPYDEN  226 (475)
T ss_pred             CEEEE-EeCCccHHHHHHHHHHHHhChhhcCceEEEEEeccCCc-------H-HHHHHHHHHHHHhhCCCEEEEecCCCc
Confidence            65555 444443 334555555555543 357889999998731       1 111123445566679999999998765


Q ss_pred             c
Q 022525          243 I  243 (295)
Q Consensus       243 ~  243 (295)
                      +
T Consensus       227 l  227 (475)
T TIGR00313       227 L  227 (475)
T ss_pred             C
Confidence            4

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=99.24  E-value=2.9e-10  Score=103.12  Aligned_cols=75  Identities=23%  Similarity=0.195  Sum_probs=61.6

Q ss_pred             hhhhhccccccccCCCcc-ccCCCCeEEEEeeCCC---CCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccC
Q 022525            8 FTRLGGVRYYAAFGSKDL-KIDGVKDVIAVASGKG---GVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKID   83 (295)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~-~~~~~~~vI~i~s~kG---GvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~   83 (295)
                      .+.|..+|+.+.+..... .....+|+|.|+|...   |.||||++.|||..|++ .|+||+++   ...|++...||.+
T Consensus        31 ~e~Yg~~kaki~~~~~~~~~~~~~~k~IlVTS~~PTp~GEGKTt~sinLA~~la~-~Gkkvlli---LR~Psl~~~fg~k  106 (557)
T PRK13505         31 LEPYGKYKAKISLDKIKALKDKKDGKLILVTAINPTPAGEGKSTVTVGLGDALNK-IGKKTVIA---LREPSLGPVFGIK  106 (557)
T ss_pred             HHhccCcceeeCHHHHhhhccCCCCeEEEEecCCCCCCCCCHHHHHHHHHHHHHH-cCCeEEEE---EecCCcccccCCC
Confidence            477888888887765433 1222479999999999   99999999999999999 99999999   7788988888877


Q ss_pred             CCc
Q 022525           84 QKP   86 (295)
Q Consensus        84 ~~~   86 (295)
                      ...
T Consensus       107 gga  109 (557)
T PRK13505        107 GGA  109 (557)
T ss_pred             CCc
Confidence            643

>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]

Probab=99.22  E-value=2.9e-10  Score=92.96  Aligned_cols=195  Identities=14%  Similarity=0.097  Sum_probs=123.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccc-------cccCCc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVP-------IENYGV  102 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~-------~~~~~~  102 (295)
                      |++.+.|++.--|||||.+++.|+.+|.+ +|++|...  -|-+.      |......-+|......       ....+.
T Consensus         1 m~~~~fVtGTDT~VGKTv~S~aL~~~l~~-~g~~~~~~--KPVqs------G~~~~~~~~D~~~l~~~~~~~~~~~~~~p   71 (223)
T COG0132           1 MMKRFFVTGTDTGVGKTVVSAALAQALKQ-QGYSVAGY--KPVQT------GSEETAENSDALVLQRLSGLDLSYELINP   71 (223)
T ss_pred             CCceEEEEeCCCCccHHHHHHHHHHHHHh-CCCeeEEE--Cceee------CCCCCCCCchHHHHHHhcCCCcccccccc
Confidence            47899999999999999999999999999 99999876  22221      1111111111100000       011111


Q ss_pred             eee--ccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc---hhhhhh--ccCceEEEeeCCCc
Q 022525          103 KCM--SMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ---LTTTQT--LQLSGALIVSTPQD  175 (295)
Q Consensus       103 ~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~---~~~~~l--~~ad~viiv~~~~~  175 (295)
                      +.+  |..+..+...+   ......+.+..-+..+. +.||+|||...+|+-...   .....+  ...--+|+|+....
T Consensus        72 y~f~~P~sPhlAa~~e---g~~I~~~~l~~~l~~l~-~~~d~vlVEGAGGl~vPl~~~~~~~D~~~~~~lpvILV~~~~L  147 (223)
T COG0132          72 YRFKEPLSPHLAAELE---GRTIDLEKLSQGLRQLL-KKYDLVLVEGAGGLLVPLTEEYTFADLAVQLQLPVILVVGIKL  147 (223)
T ss_pred             eecCCCCCcHHHHhhc---CCcccHHHHHHHHHhhh-cccCEEEEeCCCceeeecCCcccHHHHHHHcCCCEEEEecCCc
Confidence            111  01111111111   11244566777776777 799999999999875321   111111  11244788999999


Q ss_pred             chHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccc
Q 022525          176 VALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRK  245 (295)
Q Consensus       176 ~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~  245 (295)
                      .++..+.-.++.++..+++..|+|+|.+......      .  ......+.+..+.++++.+|+.++..+
T Consensus       148 GtINHtlLt~eal~~~gl~l~G~I~n~~~~~~~~------~--~~~~~~l~~~~~~p~~g~~p~~~~~~~  209 (223)
T COG0132         148 GTINHTLLTVEALRARGLPLAGWVANGINPELDH------Y--AEINATLLKRIGAPLLGIIPYLPESEE  209 (223)
T ss_pred             cHHHHHHHHHHHHHHCCCCEEEEEEccCCCchhH------H--HHHHHHHHHhcCCCccccccCCccccc
Confidence            9999999999999999999999999998743211      1  122335677789999999999776533

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.19  E-value=6.6e-10  Score=101.22  Aligned_cols=158  Identities=16%  Similarity=0.171  Sum_probs=90.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhC--CCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKC--QLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSM  107 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~--g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (295)
                      .+.+|+|+ +.+|+||||++.+||..++. .  |++|.+|++|.+.......+....             ...++.+.. 
T Consensus       349 ~G~vIaLV-GPtGvGKTTtaakLAa~la~-~~~gkkVaLIdtDtyRigA~EQLk~ya-------------~iLgv~v~~-  412 (559)
T PRK12727        349 RGGVIALV-GPTGAGKTTTIAKLAQRFAA-QHAPRDVALVTTDTQRVGGREQLHSYG-------------RQLGIAVHE-  412 (559)
T ss_pred             CCCEEEEE-CCCCCCHHHHHHHHHHHHHH-hcCCCceEEEecccccccHHHHHHHhh-------------cccCceeEe-
Confidence            36899998 55899999999999999887 4  589999999987633211110000             000111100 


Q ss_pred             ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhh-------hhhccCceEEEeeCCCcchHHH
Q 022525          108 GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTT-------TQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~-------~~l~~ad~viiv~~~~~~s~~~  180 (295)
                                    ......+...++.+  ..||+|||||++.........       ......+.+|++....   ..+
T Consensus       413 --------------a~d~~~L~~aL~~l--~~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss---~~D  473 (559)
T PRK12727        413 --------------ADSAESLLDLLERL--RDYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAH---FSD  473 (559)
T ss_pred             --------------cCcHHHHHHHHHHh--ccCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCC---hhH
Confidence                          01124566666666  469999999997543211101       1112234445544443   444


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ....++.+...  ...++|+|+++...        .+  ..+-.+....+.++.
T Consensus       474 l~eii~~f~~~--~~~gvILTKlDEt~--------~l--G~aLsv~~~~~LPI~  515 (559)
T PRK12727        474 LDEVVRRFAHA--KPQGVVLTKLDETG--------RF--GSALSVVVDHQMPIT  515 (559)
T ss_pred             HHHHHHHHHhh--CCeEEEEecCcCcc--------ch--hHHHHHHHHhCCCEE
Confidence            44555555543  56789999998421        11  335555666666554

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.19  E-value=1e-09  Score=97.63  Aligned_cols=158  Identities=13%  Similarity=0.128  Sum_probs=90.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH-HHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL-ASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l-a~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +++|+| .+.+|+||||++++||..+ .. .|++|+++|+|++.......+...             ....++++..   
T Consensus       223 ~~vi~l-vGptGvGKTTtaaKLA~~~~~~-~G~~V~Lit~Dt~R~aA~eQLk~y-------------Ae~lgvp~~~---  284 (432)
T PRK12724        223 RKVVFF-VGPTGSGKTTSIAKLAAKYFLH-MGKSVSLYTTDNYRIAAIEQLKRY-------------ADTMGMPFYP---  284 (432)
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHHHHh-cCCeEEEecccchhhhHHHHHHHH-------------HHhcCCCeee---
Confidence            355656 4899999999999999876 46 899999999999875422111000             0011111110   


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc---c------CceEEEeeCCCcchHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL---Q------LSGALIVSTPQDVALID  180 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~---~------ad~viiv~~~~~~s~~~  180 (295)
                                     ...+..+.+.+....||+|||||++........+..+.   .      -..+++|.++.. ...+
T Consensus       285 ---------------~~~~~~l~~~l~~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~-~~~~  348 (432)
T PRK12724        285 ---------------VKDIKKFKETLARDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTS-SYHH  348 (432)
T ss_pred             ---------------hHHHHHHHHHHHhCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCC-CHHH
Confidence                           01122233333226899999999754422121111111   1      124666666555 3455


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      +....+.+...  ++-++|+++.|.....          ..+-.+....+.|+.
T Consensus       349 ~~~~~~~f~~~--~~~glIlTKLDEt~~~----------G~il~i~~~~~lPI~  390 (432)
T PRK12724        349 TLTVLKAYESL--NYRRILLTKLDEADFL----------GSFLELADTYSKSFT  390 (432)
T ss_pred             HHHHHHHhcCC--CCCEEEEEcccCCCCc----------cHHHHHHHHHCCCEE
Confidence            56666666444  4557999999843221          335666666676664

>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms

Probab=99.19  E-value=6.3e-10  Score=84.94  Aligned_cols=124  Identities=18%  Similarity=0.178  Sum_probs=94.1

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccCCCCC
Q 022525           37 ASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSP  116 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (295)
                      ..++| +|||+++.+|...|.+ +|.+|..+....+                                            
T Consensus         5 ~~~~~-~Gkt~~~~~l~~~l~~-~~~~v~~~kp~~~--------------------------------------------   38 (134)
T cd03109           5 GTGTD-IGKTVATAILARALKE-KGYRVAPLKPVQT--------------------------------------------   38 (134)
T ss_pred             eCCCC-cCHHHHHHHHHHHHHH-CCCeEEEEecCCC--------------------------------------------
Confidence            33566 9999999999999999 9999999966654                                            


Q ss_pred             CccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhc
Q 022525          117 VVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSK  190 (295)
Q Consensus       117 ~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~  190 (295)
                                             +|++||+.++|+...      ......... .-+++|+.++..++.++...++.++.
T Consensus        39 -----------------------~d~vliEGaGg~~~p~~~~~~~~d~~~~~~-~~vllV~~~~~g~i~~a~~~~~~l~~   94 (134)
T cd03109          39 -----------------------YDFVLVEGAGGLCVPLKEDFTNADVAKELN-LPAILVTSAGLGSINHAFLTIEAARI   94 (134)
T ss_pred             -----------------------CCEEEEECCCccccCCCCCCCHHHHHHHhC-CCEEEEEcCCCCcHhHHHHHHHHHHh
Confidence                                   688999988776522      111111112 24788888888899999999999999


Q ss_pred             CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeec
Q 022525          191 VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIP  238 (295)
Q Consensus       191 ~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip  238 (295)
                      .+..+.+++.|++....       ... ....+.+.+.++.++++.||
T Consensus        95 ~g~~i~gvi~N~~~~~~-------~~~-~~~~~~i~~~~gip~LG~IP  134 (134)
T cd03109          95 KGIILNGVLGNVIVEKE-------GLA-TLNVETIERLTGIPVLGIVP  134 (134)
T ss_pred             cCCceeEEEEccCCCcc-------chh-hhhHHHHHHhcCCCEEEeCC
Confidence            99999999999987321       111 13477888999999999887

The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=99.17  E-value=3.3e-10  Score=102.48  Aligned_cols=160  Identities=21%  Similarity=0.236  Sum_probs=91.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +++|+|+++ +||||||++++||..++ ...|++|++||+|++......-+.     .+.        ...++.+...  
T Consensus       221 ~~~i~~vGp-tGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~-----~~a--------~~~~vp~~~~--  284 (424)
T PRK05703        221 GGVVALVGP-TGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLK-----TYA--------KIMGIPVEVV--  284 (424)
T ss_pred             CcEEEEECC-CCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHH-----HHH--------HHhCCceEcc--
Confidence            578888855 99999999999999998 426899999999997532110000     000        0011111000  


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch---hhhhhcc-C---ceEEEeeCCCcchHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL---TTTQTLQ-L---SGALIVSTPQDVALIDAR  182 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~---~~~~l~~-a---d~viiv~~~~~~s~~~~~  182 (295)
                                   .....+...+..+  ..||+|||||++.......   .+..+.. +   ..+++|+... .....+.
T Consensus       285 -------------~~~~~l~~~l~~~--~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~-~~~~~l~  348 (424)
T PRK05703        285 -------------YDPKELAKALEQL--RDCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSAT-TKYEDLK  348 (424)
T ss_pred             -------------CCHHhHHHHHHHh--CCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECC-CCHHHHH
Confidence                         0023455555555  4699999999965443211   1222222 2   2334444433 3455666


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..++.+...+  +-++|+++++....        +  ..+-.+....+.++.
T Consensus       349 ~~~~~f~~~~--~~~vI~TKlDet~~--------~--G~i~~~~~~~~lPv~  388 (424)
T PRK05703        349 DIYKHFSRLP--LDGLIFTKLDETSS--------L--GSILSLLIESGLPIS  388 (424)
T ss_pred             HHHHHhCCCC--CCEEEEeccccccc--------c--cHHHHHHHHHCCCEE
Confidence            6666666554  45799999984221        1  336666667777665

>PRK05632 phosphate acetyltransferase; Reviewed

Probab=99.17  E-value=5.5e-10  Score=107.24  Aligned_cols=178  Identities=15%  Similarity=0.174  Sum_probs=107.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      |++.|.|.+...|+|||+++..|+..|.+ +|.+|..+--..+.|-           .......          .+    
T Consensus         1 m~k~l~I~~T~t~~GKT~vslgL~~~L~~-~G~~Vg~fKPi~~~p~-----------~~~~~~~----------~~----   54 (684)
T PRK05632          1 MSRSIYLAPTGTGVGLTSVSLGLMRALER-KGVKVGFFKPIAQPPL-----------TMSEVEA----------LL----   54 (684)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEeCCcccCCC-----------CHHHHHH----------HH----
Confidence            36789999999999999999999999999 9999999863333210           0000000          00    


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch------hhhhhccCceEEEeeCCCcchHHH---
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL------TTTQTLQLSGALIVSTPQDVALID---  180 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~------~~~~l~~ad~viiv~~~~~~s~~~---  180 (295)
                        ...     ......+.+...++.+. .+||+||||++.+.+....      .+... ..+-+|+|+.+...++.+   
T Consensus        55 --~~~-----~~~~~~~~I~~~~~~l~-~~~D~VLIEGa~~~~~~~~~~~~na~iA~~-L~~pVILV~~~~~~si~d~~~  125 (684)
T PRK05632         55 --ASG-----QLDELLEEIVARYHALA-KDCDVVLVEGLDPTRKHPFEFSLNAEIAKN-LGAEVVLVSSGGNDTPEELAE  125 (684)
T ss_pred             --hcc-----CChHHHHHHHHHHHHhc-cCCCEEEEeCcCCCCcCcccCchHHHHHHH-hCCCEEEEECCCCCChHHHHH
Confidence              000     01123455666667777 8999999999976553211      11111 135678888777766544   


Q ss_pred             -HHHHHHHHh-cCCCCeeeEEecc--ccCCCCCCCCCcccc----C-----CchhhHHHHHhCCcEEEeecCCcccc
Q 022525          181 -ARKGITMFS-KVQVPILGLVENM--SCFICPHCSEPSFIF----G-----KGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       181 -~~~~~~~l~-~~~~~~~~~ViN~--~~~~~~~~~~~~~~~----~-----~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                       +....+.+. ..+.+..|+|+|+  ++..  ....-...+    .     ...........+++++++||+++.+.
T Consensus       126 ~i~~~~~~l~~~~~~~v~GVIvNr~~v~~~--~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~LG~IP~d~~L~  200 (684)
T PRK05632        126 RIELAASSFGGAKNANILGVIINKLNAPVD--EQGRTRPDLSEIFDDSSKANVDPSKLFASSPLPLLGVVPWSPDLI  200 (684)
T ss_pred             HHHHHHHHhccCCCCcEEEEEEECCCCCHH--HHHHHHHHHHhhhccccccchhcchhhhcCCCceEEEccCccccC
Confidence             444444544 4568899999999  4421  000000000    0     00012234456889999999999876

>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []

Probab=99.17  E-value=9.6e-11  Score=79.45  Aligned_cols=78  Identities=60%  Similarity=1.123  Sum_probs=59.3

Q ss_pred             cEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccC
Q 022525          141 DILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFG  218 (295)
Q Consensus       141 D~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~  218 (295)
                      ||.|||+|||.++..+++......+..|+|++|...+...+.+.++.+++.+.+++|+|-||....++.+.+..+.++
T Consensus         2 D~LiiD~PPGTgD~~l~~~~~~~~~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGvVENMs~~~Cp~Cg~~~~iFg   79 (81)
T PF10609_consen    2 DYLIIDLPPGTGDEHLTLMQYLPIDGAIVVTTPQELALADVRRAIDMFRKLNVPILGVVENMSYFVCPHCGERIYIFG   79 (81)
T ss_dssp             CEEEEE--SCSSSHHHHHHHHH--SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEEEECT-EEE-TTT--EEETTT
T ss_pred             CEEEEeCCCCCCcHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEEEECCCccCCCCCCCeecCCC
Confidence            899999999999887777777778999999999999999999999999999999999999999988888776655543

It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=99.16  E-value=1.5e-09  Score=95.55  Aligned_cols=215  Identities=21%  Similarity=0.172  Sum_probs=123.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (295)
                      +.|..+-+--|.||||+|.-||.+|.+ +|++|++|-||..-|..-.-+..             -....++++.+.+   
T Consensus       100 P~vImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~RpAA~eQL~~-------------La~q~~v~~f~~~---  162 (451)
T COG0541         100 PTVILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYRPAAIEQLKQ-------------LAEQVGVPFFGSG---  162 (451)
T ss_pred             CeEEEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCChHHHHHHHH-------------HHHHcCCceecCC---
Confidence            344444588899999999999999999 99999999999988763211100             0011122222110   


Q ss_pred             CCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch------hhhhhccCceEEEeeCCCcchHHHHHHHH
Q 022525          112 PSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL------TTTQTLQLSGALIVSTPQDVALIDARKGI  185 (295)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~------~~~~l~~ad~viiv~~~~~~s~~~~~~~~  185 (295)
                              .+....+-.++.++.++...||+|||||++.+....-      .+.....-|.+++|++...  =+++...-
T Consensus       163 --------~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~--GQdA~~~A  232 (451)
T COG0541         163 --------TEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMI--GQDAVNTA  232 (451)
T ss_pred             --------CCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEeccc--chHHHHHH
Confidence                    0111234456666666657899999999987764322      2333345588888876544  33444444


Q ss_pred             HHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCC--cEEEeecCCccccccccCCCceEEcCCCChHH
Q 022525          186 TMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGL--KVIGEIPIEMDIRKGSDDGVPVVISAPDSTVS  263 (295)
Q Consensus       186 ~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~--~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~  263 (295)
                      +.++ ..+++-|+|+++.|.....          ..+-.+....|.  +++++=..-..+.          .+.|++-+.
T Consensus       233 ~aF~-e~l~itGvIlTKlDGdaRG----------GaALS~~~~tg~PIkFiGtGEki~dLE----------~F~P~R~as  291 (451)
T COG0541         233 KAFN-EALGITGVILTKLDGDARG----------GAALSARAITGKPIKFIGTGEKIDDLE----------PFHPDRFAS  291 (451)
T ss_pred             HHHh-hhcCCceEEEEcccCCCcc----------hHHHhhHHHHCCCeEEEecCCCcccCC----------CcChHHHHH
Confidence            4443 2346779999999854222          224444455554  4454322222221          123544444


Q ss_pred             H-----HHHHHHHHHHHHHHHHHHhhcCCCcccCCC
Q 022525          264 R-----AYGEVAVNVVNRLQELAKEQEHPESNSTRF  294 (295)
Q Consensus       264 ~-----~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~  294 (295)
                      +     ++..|.+.+.+.+.+...+....++.++.|
T Consensus       292 RILGMGDv~sLvEk~~~~~d~e~a~~~~~kl~~g~F  327 (451)
T COG0541         292 RILGMGDVLSLIEKAEEVVDEEEAEKLAEKLKKGKF  327 (451)
T ss_pred             HhcCcccHHHHHHHHHHhhhHHHHHHHHHHHHhCCC
Confidence            3     456777777776666554444444444444

>PRK00784 cobyric acid synthase; Provisional

Probab=99.14  E-value=1.7e-09  Score=100.15  Aligned_cols=200  Identities=14%  Similarity=0.160  Sum_probs=108.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcc-------cccccCCc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKM-------VPIENYGV  102 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~-------~~~~~~~~  102 (295)
                      |++.|.|++...|||||++++.|+..|++ +|.+|..+  .+++.+.....+.+. ....|....       .+....+.
T Consensus         1 m~~~ifItGT~T~vGKT~vt~~L~~~l~~-~G~~v~~~--Kpv~~~~~~~~~~dg-~~~~Da~~l~~~~~~~~~~~~i~P   76 (488)
T PRK00784          1 MAKALMVQGTASDAGKSTLVAGLCRILAR-RGYRVAPF--KAQNMSLNSAVTADG-GEIGRAQALQAEAAGVEPSVDMNP   76 (488)
T ss_pred             CCceEEEEeCCCCCcHHHHHHHHHHHHHH-CCCeEecc--cchhccccceECCCC-CeeHHHHHHHHHhCCCCchhccCC
Confidence            36889999999999999999999999999 99999877  444322111111100 000111000       00000111


Q ss_pred             eeec-ccc-----ccCCCC--CC-----ccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc--------chhhhhh
Q 022525          103 KCMS-MGF-----LVPSSS--PV-----VWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA--------QLTTTQT  161 (295)
Q Consensus       103 ~~~~-~~~-----~~~~~~--~~-----~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~--------~~~~~~l  161 (295)
                      ..+. ..+     ......  .+     ........+.+...+..+. ..||++||+..+++-..        ...+...
T Consensus        77 ~~~~~~sp~~a~~~~~g~~~~~l~a~~~~~~~~~~~~~I~~~~~~l~-~~~D~vIVEGaGg~~~~~L~~~~~~~~dlak~  155 (488)
T PRK00784         77 VLLKPQSDRGSQVIVQGKPVGNMDARDYHDYKPRLLEAVLESLDRLA-AEYDVVVVEGAGSPAEINLRDRDIANMGFAEA  155 (488)
T ss_pred             EEecCCCCCcceEEEcCccccccCHHHHhhcchhhHHHHHHHHHHHH-hcCCEEEEECCCCccccCcccCCchhHHHHHH
Confidence            1110 000     000000  00     0011234566677777777 79999999987444310        2222233


Q ss_pred             ccCceEEEeeCCCcc-hHHHHHHHHHHHhc-CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecC
Q 022525          162 LQLSGALIVSTPQDV-ALIDARKGITMFSK-VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPI  239 (295)
Q Consensus       162 ~~ad~viiv~~~~~~-s~~~~~~~~~~l~~-~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~  239 (295)
                      ..+.. |+|+..... ++..+...++.+.. .+.++.|+|+|+++..       . ..-+...+.+.+..++++++.||+
T Consensus       156 l~~PV-ILV~~~~~g~~~~~i~~~~~~l~~~~~~~i~GvI~N~v~~~-------~-~~~~~~~~~l~~~~gipvLG~iP~  226 (488)
T PRK00784        156 ADAPV-ILVADIDRGGVFASLVGTLALLPPEERARVKGFIINKFRGD-------I-SLLEPGLDWLEELTGVPVLGVLPY  226 (488)
T ss_pred             cCCCE-EEEEeCCcCcHHHHHHHHHHhcChhhCCcEEEEEEECCCCC-------H-HHHHHHHHHHHHhcCCCEEEEcCC
Confidence            33444 444444333 46666655566553 3468999999999731       0 000123444566679999999999


Q ss_pred             Cccc
Q 022525          240 EMDI  243 (295)
Q Consensus       240 ~~~~  243 (295)
                      ++.+
T Consensus       227 ~~~L  230 (488)
T PRK00784        227 LDDL  230 (488)
T ss_pred             CcCC
Confidence            8765

>TIGR00379 cobB cobyrinic acid a,c-diamide synthase

Probab=99.11  E-value=6e-09  Score=95.39  Aligned_cols=171  Identities=18%  Similarity=0.198  Sum_probs=98.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPS  113 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  113 (295)
                      |.|++...|+|||++++.|+.+|++ +|.+|..+-.-+..        .++  .+.....-.+.  .+++          
T Consensus         2 ~~I~gT~t~vGKT~vt~~L~~~L~~-~G~~V~~fK~g~d~--------~D~--~~~~~~~g~~~--~~ld----------   58 (449)
T TIGR00379         2 VVIAGTSSGVGKTTISTGIMKALSR-RKLRVQPFKVGPDY--------IDP--MFHTQATGRPS--RNLD----------   58 (449)
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHH-CCCceeEEccCCCC--------CCH--HHHHHHhCCch--hhCC----------
Confidence            6789999999999999999999999 99999998542110        010  00000000000  0000          


Q ss_pred             CCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCc---------cchhhhhhccCceEEEeeCCCc-chHHHHHH
Q 022525          114 SSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGD---------AQLTTTQTLQLSGALIVSTPQD-VALIDARK  183 (295)
Q Consensus       114 ~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~---------~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~  183 (295)
                            ......+.+...+..+. ..+|++||....|+-+         ....+.....+..++++-.... .++..+..
T Consensus        59 ------~~~~~~~~i~~~~~~~~-~~~D~viVEGagGl~~g~~p~~~~~s~adlAk~l~~pVILV~~~~~~~~t~~al~~  131 (449)
T TIGR00379        59 ------SFFMSEAQIQECFHRHS-KGTDYSIIEGVRGLYDGISAITDYGSTASVAKALDAPIVLVMNCQRLSRSAAAIVL  131 (449)
T ss_pred             ------cccCCHHHHHHHHHHhc-ccCCEEEEecCCccccCCCCCCCCccHHHHHHHhCCCEEEEECCchHHHHHHHHHH
Confidence                  00112566777787777 7899999999866531         1223333334444444433211 11222222


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccc
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                      ....+ ..+.++.|+|+|++...       ...  ....+.+.+..+++++++||+++.+.
T Consensus       132 ~~~~~-~~~i~i~GvIlN~v~~~-------~~~--~~~~~~i~~~~gipvLG~IP~~~~l~  182 (449)
T TIGR00379       132 GYRSF-DPGVKLKGVILNRVGSE-------RHL--EKLKIAVEPLRGIPILGVIPRQQDLK  182 (449)
T ss_pred             HHHhh-CCCCCEEEEEEECCCCH-------HHH--HHHHHHHHHhCCCCEEEEecCccccC
Confidence            22222 35788999999998721       111  11233444456999999999998874

This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.

>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=99.09  E-value=2.9e-09  Score=86.54  Aligned_cols=173  Identities=22%  Similarity=0.223  Sum_probs=98.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +++|+++ +-.||||||+++-||+.+.. +|++|.+|-+|........-+.     .+        .+..++.+...   
T Consensus         1 p~vi~lv-GptGvGKTTt~aKLAa~~~~-~~~~v~lis~D~~R~ga~eQL~-----~~--------a~~l~vp~~~~---   62 (196)
T PF00448_consen    1 PKVIALV-GPTGVGKTTTIAKLAARLKL-KGKKVALISADTYRIGAVEQLK-----TY--------AEILGVPFYVA---   62 (196)
T ss_dssp             SEEEEEE-ESTTSSHHHHHHHHHHHHHH-TT--EEEEEESTSSTHHHHHHH-----HH--------HHHHTEEEEES---
T ss_pred             CEEEEEE-CCCCCchHhHHHHHHHHHhh-ccccceeecCCCCCccHHHHHH-----HH--------HHHhccccchh---
Confidence            3778887 66789999999999999999 7999999999987633211110     00        01112221110   


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch------hhhhhccCceEEEeeCCCcchHHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL------TTTQTLQLSGALIVSTPQDVALIDARKG  184 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~------~~~~l~~ad~viiv~~~~~~s~~~~~~~  184 (295)
                        ..      .....+.+.+.++....++||+|+|||++.......      .+.....-+.+++|..+... -..+...
T Consensus        63 --~~------~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~-~~~~~~~  133 (196)
T PF00448_consen   63 --RT------ESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMG-QEDLEQA  133 (196)
T ss_dssp             --ST------TSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGG-GHHHHHH
T ss_pred             --hc------chhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccC-hHHHHHH
Confidence              00      011234455555555436899999999964432111      11222245677777777664 3444455


Q ss_pred             HHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccc
Q 022525          185 ITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDI  243 (295)
Q Consensus       185 ~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~  243 (295)
                      ..+.+..++.  ++|++++|.....          ..+-.+....+.|+. ++-....+
T Consensus       134 ~~~~~~~~~~--~lIlTKlDet~~~----------G~~l~~~~~~~~Pi~-~it~Gq~V  179 (196)
T PF00448_consen  134 LAFYEAFGID--GLILTKLDETARL----------GALLSLAYESGLPIS-YITTGQRV  179 (196)
T ss_dssp             HHHHHHSSTC--EEEEESTTSSSTT----------HHHHHHHHHHTSEEE-EEESSSST
T ss_pred             HHHhhcccCc--eEEEEeecCCCCc----------ccceeHHHHhCCCeE-EEECCCCh
Confidence            5555444443  7999999842111          346677777777765 45555444

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 ....

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.07  E-value=6.1e-09  Score=90.55  Aligned_cols=151  Identities=17%  Similarity=0.156  Sum_probs=86.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCcccccccCCceeeccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      .+++|+|+ +++|+||||++..|+..+.+ .|++|.+|++|++.+-.. .+++-..  .+....     ...+..+.+..
T Consensus        33 ~~~~i~i~-G~~G~GKttl~~~l~~~~~~-~~~~v~~i~~D~~~~~~~~~~~~~~~--~~~~~~-----~~~~~~~~~~~  103 (300)
T TIGR00750        33 NAHRVGIT-GTPGAGKSTLLEALGMELRR-RGLKVAVIAVDPSSPFTGGSILGDRT--RMQRLA-----TDPGAFIRSMP  103 (300)
T ss_pred             CceEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCeEEEEecCCCCCcchhhhcccch--hhhhcc-----cCCCceeeecC
Confidence            36888887 88999999999999999999 999999999999874321 1221110  111000     01111111110


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHH
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMF  188 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l  188 (295)
                         ... ..    .........+++.+...+||+|||||++ .....  ...+..+|.++++..+..  -.++......+
T Consensus       104 ---~~~-~~----~~~~~~~~~~~~~l~~~g~D~viidT~G-~~~~e--~~i~~~aD~i~vv~~~~~--~~el~~~~~~l  170 (300)
T TIGR00750       104 ---TRG-HL----GGLSQATRELILLLDAAGYDVIIVETVG-VGQSE--VDIANMADTFVVVTIPGT--GDDLQGIKAGL  170 (300)
T ss_pred             ---ccc-cc----cchhHHHHHHHHHHHhCCCCEEEEeCCC-Cchhh--hHHHHhhceEEEEecCCc--cHHHHHHHHHH
Confidence               000 00    0012334444444543689999999994 55323  344557788888865543  23333333323


Q ss_pred             hcCCCCeeeEEeccccC
Q 022525          189 SKVQVPILGLVENMSCF  205 (295)
Q Consensus       189 ~~~~~~~~~~ViN~~~~  205 (295)
                      .  +.+. .+|+|+.+.
T Consensus       171 ~--~~~~-ivv~NK~Dl  184 (300)
T TIGR00750       171 M--EIAD-IYVVNKADG  184 (300)
T ss_pred             h--hhcc-EEEEEcccc
Confidence            2  2232 489999984

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK14974 cell division protein FtsY; Provisional

Probab=99.07  E-value=5.1e-09  Score=91.60  Aligned_cols=165  Identities=19%  Similarity=0.178  Sum_probs=93.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +.+|.|+ +..|+||||++++||..|.+ .|++|+++++|.........+..             .....++.++..   
T Consensus       140 ~~vi~~~-G~~GvGKTTtiakLA~~l~~-~g~~V~li~~Dt~R~~a~eqL~~-------------~a~~lgv~v~~~---  201 (336)
T PRK14974        140 PVVIVFV-GVNGTGKTTTIAKLAYYLKK-NGFSVVIAAGDTFRAGAIEQLEE-------------HAERLGVKVIKH---  201 (336)
T ss_pred             CeEEEEE-cCCCCCHHHHHHHHHHHHHH-cCCeEEEecCCcCcHHHHHHHHH-------------HHHHcCCceecc---
Confidence            5677776 69999999999999999999 99999999999764321111100             000111111110   


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhh------ccCceEEEeeCCCcchHHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQT------LQLSGALIVSTPQDVALIDARKG  184 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l------~~ad~viiv~~~~~~s~~~~~~~  184 (295)
                         ..     .......+...++.....+||+|||||++........+..|      ...|.+++|..+...  +++...
T Consensus       202 ---~~-----g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g--~d~~~~  271 (336)
T PRK14974        202 ---KY-----GADPAAVAYDAIEHAKARGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAG--NDAVEQ  271 (336)
T ss_pred             ---cC-----CCCHHHHHHHHHHHHHhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccc--hhHHHH
Confidence               00     00112333444444333679999999997664222212221      246788888777542  333333


Q ss_pred             HHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          185 ITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       185 ~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .+.+.+ ..++-++|+|+++.....          ...-.+....+.|+.
T Consensus       272 a~~f~~-~~~~~giIlTKlD~~~~~----------G~~ls~~~~~~~Pi~  310 (336)
T PRK14974        272 AREFNE-AVGIDGVILTKVDADAKG----------GAALSIAYVIGKPIL  310 (336)
T ss_pred             HHHHHh-cCCCCEEEEeeecCCCCc----------cHHHHHHHHHCcCEE
Confidence            344432 234568999999843211          234455555666665

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.06  E-value=6.5e-09  Score=87.28  Aligned_cols=150  Identities=23%  Similarity=0.277  Sum_probs=97.8

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCcccccc-cCCceee
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPIE-NYGVKCM  105 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~~-~~~~~~~  105 (295)
                      ...+.+|+|+ +-+|+||||+.-.|+..|.+ +|++|.+|--||..|-+- .++|-        -..+.... .+++.+-
T Consensus        48 tG~a~viGIT-G~PGaGKSTli~~L~~~l~~-~G~rVaVlAVDPSSp~TGGsiLGD--------RiRM~~~~~~~~vFiR  117 (323)
T COG1703          48 TGNAHVIGIT-GVPGAGKSTLIEALGRELRE-RGHRVAVLAVDPSSPFTGGSILGD--------RIRMQRLAVDPGVFIR  117 (323)
T ss_pred             CCCCcEEEec-CCCCCchHHHHHHHHHHHHH-CCcEEEEEEECCCCCCCCcccccc--------HhhHHhhccCCCeEEe
Confidence            4457899998 78999999999999999999 999999999998765432 23331        11111111 2222222


Q ss_pred             ccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHH
Q 022525          106 SMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKG  184 (295)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~  184 (295)
                      |.      +..-.  ---.++....++..+....||+|||.|- |.+.+...+  ...+|.++++..|... .++..+..
T Consensus       118 s~------~srG~--lGGlS~at~~~i~~ldAaG~DvIIVETV-GvGQsev~I--~~~aDt~~~v~~pg~GD~~Q~iK~G  186 (323)
T COG1703         118 SS------PSRGT--LGGLSRATREAIKLLDAAGYDVIIVETV-GVGQSEVDI--ANMADTFLVVMIPGAGDDLQGIKAG  186 (323)
T ss_pred             ec------CCCcc--chhhhHHHHHHHHHHHhcCCCEEEEEec-CCCcchhHH--hhhcceEEEEecCCCCcHHHHHHhh
Confidence            21      11100  0013556666666666689999999998 666545544  4478998888888765 46666555


Q ss_pred             HHHHhcCCCCeeeEEecccc
Q 022525          185 ITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       185 ~~~l~~~~~~~~~~ViN~~~  204 (295)
                      +-.+...      +|+|+.+
T Consensus       187 imEiaDi------~vINKaD  200 (323)
T COG1703         187 IMEIADI------IVINKAD  200 (323)
T ss_pred             hhhhhhe------eeEeccC
Confidence            5554432      8999998

>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]

Probab=99.06  E-value=1.2e-08  Score=89.99  Aligned_cols=168  Identities=22%  Similarity=0.234  Sum_probs=105.2

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC--CCcc-cccccCCCccccccCcccccccCCceeecccc
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG--PSVP-MMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~--~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .|.|.+...|+||||+|..|..+|++ +|.+|--+-.-|..  |+.+ ...|.             +.  .|++..    
T Consensus         2 ~vvIAg~~SG~GKTTvT~glm~aL~~-rg~~VqpfKvGPDYIDP~~H~~atG~-------------~s--rNLD~~----   61 (451)
T COG1797           2 AVVIAGTSSGSGKTTVTLGLMRALRR-RGLKVQPFKVGPDYIDPGYHTAATGR-------------PS--RNLDSW----   61 (451)
T ss_pred             ceEEecCCCCCcHHHHHHHHHHHHHh-cCCcccccccCCCccCchhhhHhhCC-------------cc--CCCchh----
Confidence            47888999999999999999999999 99888655444333  1111 00111             11  111111    


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc---------chhhhhhccCceEEEeeCCCcc-hHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA---------QLTTTQTLQLSGALIVSTPQDV-ALI  179 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~---------~~~~~~l~~ad~viiv~~~~~~-s~~  179 (295)
                                  ....+.++.++..-. .+.|+.||..--|+-+.         ...++.+..+-.|+++-..... ++.
T Consensus        62 ------------mm~~~~v~~~f~~~~-~~adi~vIEGVMGLfDG~~~~~~~gSTA~lAk~l~~PVvLVid~~~~s~S~A  128 (451)
T COG1797          62 ------------MMGEEGVRALFARAA-ADADIAVIEGVMGLFDGRGSATDTGSTADLAKLLGAPVVLVVDASGLSRSVA  128 (451)
T ss_pred             ------------hcCHHHHHHHHHHhc-CCCCEEEEeeccccccCCCCCcCCCCHHHHHHHhCCCEEEEEeCcchhHHHH
Confidence                        112466777777777 88999999877665443         2233444455555555433332 333


Q ss_pred             HHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHH-hCCcEEEeecCCcccc
Q 022525          180 DARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAE-MGLKVIGEIPIEMDIR  244 (295)
Q Consensus       180 ~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~Ip~~~~~~  244 (295)
                      .+......+. .++++.|+|+|++..       ..+   ....++..+. .|++++++||+++.+.
T Consensus       129 Aiv~G~~~fd-p~v~iaGVIlNrVgs-------erH---~~llr~Ale~~~gv~vlG~lpr~~~l~  183 (451)
T COG1797         129 AIVKGFKHFD-PDVNIAGVILNRVGS-------ERH---YELLRDALEEYTGVPVLGYLPRDDDLE  183 (451)
T ss_pred             HHHHHHHhcC-CCCceEEEEEecCCC-------HHH---HHHHHHHhhhcCCCcEEEEecCCcccC
Confidence            4444444432 567899999999872       211   2456677776 6899999999999864

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.03  E-value=7.6e-09  Score=90.27  Aligned_cols=148  Identities=17%  Similarity=0.081  Sum_probs=89.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCcccc-cccCCceeecc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVP-IENYGVKCMSM  107 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~  107 (295)
                      .+.+|+|+ +..|+||||++..|...+.. .|++|.+|..|++.+... .++|-..        .... ...++..+.+.
T Consensus        55 ~~~~igi~-G~~GaGKSTl~~~l~~~l~~-~g~~v~vi~~Dp~s~~~~gallgd~~--------r~~~~~~~~~~~~r~~  124 (332)
T PRK09435         55 NALRIGIT-GVPGVGKSTFIEALGMHLIE-QGHKVAVLAVDPSSTRTGGSILGDKT--------RMERLSRHPNAFIRPS  124 (332)
T ss_pred             CcEEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCeEEEEEeCCCccccchhhhchHh--------HHHhhcCCCCeEEEec
Confidence            35788886 66999999999999999999 999999999999875321 2222111        0000 01111111111


Q ss_pred             ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeC-CCcchHHHHHH-HH
Q 022525          108 GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVST-PQDVALIDARK-GI  185 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~-~~~~s~~~~~~-~~  185 (295)
                      +      ..  +.-......+...+..+...+||+|||||++ ...+...  ....||.+++|+. +....++.... .+
T Consensus       125 ~------~~--~~l~~~a~~~~~~~~~~~~~g~d~viieT~G-v~qs~~~--i~~~aD~vlvv~~p~~gd~iq~~k~gi~  193 (332)
T PRK09435        125 P------SS--GTLGGVARKTRETMLLCEAAGYDVILVETVG-VGQSETA--VAGMVDFFLLLQLPGAGDELQGIKKGIM  193 (332)
T ss_pred             C------Cc--ccccchHHHHHHHHHHHhccCCCEEEEECCC-CccchhH--HHHhCCEEEEEecCCchHHHHHHHhhhh
Confidence            1      00  0011124556666666654789999999995 4433333  3457999999986 44455555544 22


Q ss_pred             HHHhcCCCCeeeEEeccccC
Q 022525          186 TMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       186 ~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +..   .    .+|+||.|.
T Consensus       194 E~a---D----IiVVNKaDl  206 (332)
T PRK09435        194 ELA---D----LIVINKADG  206 (332)
T ss_pred             hhh---h----eEEeehhcc
Confidence            222   1    399999984

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=99.00  E-value=2.3e-08  Score=84.93  Aligned_cols=161  Identities=18%  Similarity=0.170  Sum_probs=96.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +.+|++. ++.|+||||+...++..+.. .|.+|.+|++|.+.......+...             ....++.+...   
T Consensus        75 ~~~i~~~-G~~g~GKTtl~~~l~~~l~~-~~~~v~~i~~D~~ri~~~~ql~~~-------------~~~~~~~~~~~---  136 (270)
T PRK06731         75 VQTIALI-GPTGVGKTTTLAKMAWQFHG-KKKTVGFITTDHSRIGTVQQLQDY-------------VKTIGFEVIAV---  136 (270)
T ss_pred             CCEEEEE-CCCCCcHHHHHHHHHHHHHH-cCCeEEEEecCCCCHHHHHHHHHH-------------hhhcCceEEec---
Confidence            4678876 55999999999999999998 899999999997752211111000             00011111100   


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccC-CCccEEEEcCCCCCCccchhhhhh------ccCceEEEeeCCCcchHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDW-GNLDILVIDMPPGTGDAQLTTTQT------LQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~-~~yD~iiiD~~~~~~~~~~~~~~l------~~ad~viiv~~~~~~s~~~~~~  183 (295)
                                  .....+...++.++. ..||+|||||++........+..+      ..-+.+++|.++.. .-.++..
T Consensus       137 ------------~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~-~~~d~~~  203 (270)
T PRK06731        137 ------------RDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASM-KSKDMIE  203 (270)
T ss_pred             ------------CCHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCcc-CHHHHHH
Confidence                        012345555555541 479999999998764222111111      23456777776654 3445556


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .++.+..  .++-++|++++|.....          ..+-.+....+.|+.
T Consensus       204 ~~~~f~~--~~~~~~I~TKlDet~~~----------G~~l~~~~~~~~Pi~  242 (270)
T PRK06731        204 IITNFKD--IHIDGIVFTKFDETASS----------GELLKIPAVSSAPIV  242 (270)
T ss_pred             HHHHhCC--CCCCEEEEEeecCCCCc----------cHHHHHHHHHCcCEE
Confidence            6666654  56678999999943211          345666666676654

>TIGR00345 arsA arsenite-activated ATPase (arsA)

Probab=98.99  E-value=4.3e-09  Score=90.71  Aligned_cols=73  Identities=10%  Similarity=0.167  Sum_probs=49.3

Q ss_pred             eEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCC--CCccccCCchhhHHHHHhCCcEEEeec
Q 022525          166 GALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCS--EPSFIFGKGGTHRTAAEMGLKVIGEIP  238 (295)
Q Consensus       166 ~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~~~Ip  238 (295)
                      .+++|+.|+..++.++.+.++.++..+.+..++|+|++......+.  ......++..++++.+.++...+..+|
T Consensus       191 ~~vlV~~pe~~si~e~~rl~~~L~~~g~~~~~lvvN~v~~~~~~~~~~~~r~~~q~~~L~~i~~~~~~~~~~~vp  265 (284)
T TIGR00345       191 SFVLVVIPEKMSLYESERAHKELAKYGIKVDAVIVNQVLPENAQDEFCQARWELQQKYLKEIPEKFADLPVAEVP  265 (284)
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHhCCCCCCEEEEeCCcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCeEEec
Confidence            4899999999999999999999999999999999999875311100  000111223355666666443344555

The N-terminal 50 amino acids hits Pfam families NB-ARC and fer4_NifH. residues 4-11 of the seed alignment contain a potential ATP binding site. The function of the gene product is to catalyze the extrusion of the oxyanions arsenite, antimonite and arsenate for detoxification. Some members of this family contain a duplication so the model finds hits twice.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.98  E-value=2.3e-08  Score=89.11  Aligned_cols=160  Identities=16%  Similarity=0.139  Sum_probs=93.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh---CCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK---CQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSM  107 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~---~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (295)
                      +++|+++ ++.|+||||+++.||..+...   .|++|.+|++|++.......+..-     .+        ..++++.. 
T Consensus       174 ~~vi~lv-GptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~-----a~--------~lgvpv~~-  238 (388)
T PRK12723        174 KRVFILV-GPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTY-----GD--------IMGIPVKA-  238 (388)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHH-----hh--------cCCcceEe-
Confidence            4666665 667999999999999998841   479999999998764432211110     00        01111100 


Q ss_pred             ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhh----hhc--cCc-eEEEeeCCCcchHHH
Q 022525          108 GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTT----QTL--QLS-GALIVSTPQDVALID  180 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~----~l~--~ad-~viiv~~~~~~s~~~  180 (295)
                                    ......+...+..+  ..||+|||||++........+.    .+.  ..+ .+++|.++... ..+
T Consensus       239 --------------~~~~~~l~~~L~~~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~-~~~  301 (388)
T PRK12723        239 --------------IESFKDLKEEITQS--KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK-TSD  301 (388)
T ss_pred             --------------eCcHHHHHHHHHHh--CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC-HHH
Confidence                          00124456656555  5799999999976543221111    111  123 57777777664 444


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      +......+..  .++-++|+++.|.....          ..+-.+....+.|+.
T Consensus       302 ~~~~~~~~~~--~~~~~~I~TKlDet~~~----------G~~l~~~~~~~~Pi~  343 (388)
T PRK12723        302 VKEIFHQFSP--FSYKTVIFTKLDETTCV----------GNLISLIYEMRKEVS  343 (388)
T ss_pred             HHHHHHHhcC--CCCCEEEEEeccCCCcc----------hHHHHHHHHHCCCEE
Confidence            5555555443  35568999999843221          346666666666654

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=98.89  E-value=3.3e-09  Score=87.88  Aligned_cols=146  Identities=24%  Similarity=0.313  Sum_probs=87.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCccccc-ccCCceeecc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPI-ENYGVKCMSM  107 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~  107 (295)
                      ...+|+|+ +.+|+||||+.-.|+..+.+ .|++|.++-.||..|-.- .++|        |...+... .++++.+-|.
T Consensus        28 ~a~~iGiT-G~PGaGKSTli~~l~~~~~~-~g~~VaVlAVDPSSp~tGGAlLG--------DRiRM~~~~~d~~vfIRS~   97 (266)
T PF03308_consen   28 RAHVIGIT-GPPGAGKSTLIDALIRELRE-RGKRVAVLAVDPSSPFTGGALLG--------DRIRMQELSRDPGVFIRSM   97 (266)
T ss_dssp             -SEEEEEE-E-TTSSHHHHHHHHHHHHHH-TT--EEEEEE-GGGGCC---SS----------GGGCHHHHTSTTEEEEEE
T ss_pred             CceEEEee-CCCCCcHHHHHHHHHHHHhh-cCCceEEEEECCCCCCCCCcccc--------cHHHhcCcCCCCCEEEeec
Confidence            36899996 78999999999999999999 999999999999765432 3333        22222221 2334433332


Q ss_pred             ccccCCCCCCccCCc--hHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHH
Q 022525          108 GFLVPSSSPVVWRGP--MVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKG  184 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~--~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~  184 (295)
                      ..          ++.  -.+......+..+....||+|||.|- |.+.+...+  ...+|.++++..|... .++..+..
T Consensus        98 at----------RG~lGGls~~t~~~v~ll~aaG~D~IiiETV-GvGQsE~~I--~~~aD~~v~v~~Pg~GD~iQ~~KaG  164 (266)
T PF03308_consen   98 AT----------RGSLGGLSRATRDAVRLLDAAGFDVIIIETV-GVGQSEVDI--ADMADTVVLVLVPGLGDEIQAIKAG  164 (266)
T ss_dssp             -------------SSHHHHHHHHHHHHHHHHHTT-SEEEEEEE-SSSTHHHHH--HTTSSEEEEEEESSTCCCCCTB-TT
T ss_pred             Cc----------CCCCCCccHhHHHHHHHHHHcCCCEEEEeCC-CCCccHHHH--HHhcCeEEEEecCCCccHHHHHhhh
Confidence            10          111  12445555555555478999999998 677545544  4479999999888765 45555544


Q ss_pred             HHHHhcCCCCeeeEEecccc
Q 022525          185 ITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       185 ~~~l~~~~~~~~~~ViN~~~  204 (295)
                      +-.+..      .+|+|+.+
T Consensus       165 imEiaD------i~vVNKaD  178 (266)
T PF03308_consen  165 IMEIAD------IFVVNKAD  178 (266)
T ss_dssp             HHHH-S------EEEEE--S
T ss_pred             hhhhcc------EEEEeCCC
Confidence            444432      38999988

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.88  E-value=4.7e-09  Score=90.32  Aligned_cols=42  Identities=38%  Similarity=0.475  Sum_probs=37.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-C-CeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKC-Q-LKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g-~~VlliD~D~~~   73 (295)
                      .+++|+|++ .+|+||||+++.||..++. . | ++|.+|++|++.
T Consensus       193 ~~~vi~~vG-ptGvGKTTt~~kLa~~~~~-~~g~~~V~li~~D~~r  236 (282)
T TIGR03499       193 QGGVIALVG-PTGVGKTTTLAKLAARFVL-EHGNKKVALITTDTYR  236 (282)
T ss_pred             CCeEEEEEC-CCCCCHHHHHHHHHHHHHH-HcCCCeEEEEECCccc
Confidence            467898885 5899999999999999998 6 5 999999999876

>PRK06278 cobyrinic acid a,c-diamide synthase; Validated

Probab=98.85  E-value=3.4e-07  Score=83.68  Aligned_cols=186  Identities=16%  Similarity=0.089  Sum_probs=101.4

Q ss_pred             ccccccccCCCcc-ccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc
Q 022525           13 GVRYYAAFGSKDL-KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD   91 (295)
Q Consensus        13 ~l~~~~~~~~~~~-~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~   91 (295)
                      +++..+....--. +....++.|.|++...|+||||+|+.|+.+|++ +   |..+-+.+..               .| 
T Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~i~Iagt~Tg~GKT~vt~~L~~al~~-~---v~~fK~GpD~---------------id-  278 (476)
T PRK06278        219 KLKSRSGISTNNKKEERNKPKGIILLATGSESGKTFLTTSIAGKLRG-K---VFVAKIGPDV---------------RD-  278 (476)
T ss_pred             HHHHHhcccccccchhhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHh-C---eEEEcCCCCh---------------hh-
Confidence            4444444333222 233347789999999999999999999999999 5   6555432211               00 


Q ss_pred             CcccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch---------hhhhhc
Q 022525           92 MKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL---------TTTQTL  162 (295)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~---------~~~~l~  162 (295)
                        ..|.- ..+. .+.....+...... ......+.+..    ++...+|++||....|+.+...         .++...
T Consensus       279 --~~p~~-~~~~-~~~sp~~a~n~~~d-~~~~~~~~~~~----~~~~~~DivIIEGagGL~dg~~~~~~~~S~adlAk~l  349 (476)
T PRK06278        279 --IVPSL-YLLR-EKMTKYNSIKIGDR-GWSDVEEFLEF----VKNSDYDYYIIEGVMGAFTGALNKKNPYSGAEIAKAL  349 (476)
T ss_pred             --cCCcc-eecc-cccCChHHHhhcCC-cccCHHHHHHH----HHhcCCCEEEEECCCCcccccCCCCccccHHHHHHHh
Confidence              00000 0000 00000000000000 00111222222    2214689999999987765321         222222


Q ss_pred             cCceEEEeeCCCcchHHHHHH----HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeec
Q 022525          163 QLSGALIVSTPQDVALIDARK----GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIP  238 (295)
Q Consensus       163 ~ad~viiv~~~~~~s~~~~~~----~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip  238 (295)
                      .+ -+|+|+.....++..+..    ..+.++..+.++.|+|+|++...       .   .....+++.+..|+++++++|
T Consensus       350 ~~-PVILV~~~~~g~i~~~~~~i~G~~~~l~~~~i~i~GVIlN~v~~~-------~---~~~~~~~~le~~gvpVLG~~~  418 (476)
T PRK06278        350 GF-PVYIVSSCSKSGIEGAFVESMAYYSLLKKMGVKVEGIILNKVYNM-------E---IFEKVKKIAENSNINLIGVGK  418 (476)
T ss_pred             CC-CEEEEEcCCCChHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCcH-------H---HHHHHHHHHHhcCCCEEEecc
Confidence            23 356666666666444433    45566667889999999999721       1   124467777778999999944

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.82  E-value=1.4e-07  Score=89.96  Aligned_cols=162  Identities=18%  Similarity=0.148  Sum_probs=95.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC-CeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ-LKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g-~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +++|+|+ +..|+||||+...||..+....| ++|.+|++|.+......-+..     +        ....++++..   
T Consensus       185 g~Vi~lV-GpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~-----~--------a~~~gvpv~~---  247 (767)
T PRK14723        185 GGVLALV-GPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRI-----Y--------GRILGVPVHA---  247 (767)
T ss_pred             CeEEEEE-CCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHH-----H--------HHhCCCCccc---
Confidence            5788887 78899999999999998864266 699999999765332111100     0        0001111100   


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhh------hccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQ------TLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~------l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                               ..   ....+...++.+  ..||+|||||++...........      ...-+.+++|++... ....+..
T Consensus       248 ---------~~---~~~~l~~al~~~--~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~-~~~~l~~  312 (767)
T PRK14723        248 ---------VK---DAADLRFALAAL--GDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAAS-HGDTLNE  312 (767)
T ss_pred             ---------cC---CHHHHHHHHHHh--cCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCC-cHHHHHH
Confidence                     00   134567777766  57899999999743321111111      112356777777664 3455566


Q ss_pred             HHHHHhcC-CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKV-QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~-~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .++.+... +.++-++|++|+|.....          ..+-.+....+.|+.
T Consensus       313 i~~~f~~~~~~~i~glIlTKLDEt~~~----------G~iL~i~~~~~lPI~  354 (767)
T PRK14723        313 VVHAYRHGAGEDVDGCIITKLDEATHL----------GPALDTVIRHRLPVH  354 (767)
T ss_pred             HHHHHhhcccCCCCEEEEeccCCCCCc----------cHHHHHHHHHCCCeE
Confidence            66666543 346779999999843221          335566666665543

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.74  E-value=1.8e-07  Score=82.82  Aligned_cols=162  Identities=19%  Similarity=0.162  Sum_probs=88.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC-CeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ-LKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g-~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +.+|+++ +..|+||||++..||..+....| .+|.+|.+|.........+.     .+.        ...++.+..   
T Consensus       137 g~ii~lv-GptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~-----~~a--------~~~gv~~~~---  199 (374)
T PRK14722        137 GGVFALM-GPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLR-----IFG--------KILGVPVHA---  199 (374)
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHH-----HHH--------HHcCCceEe---
Confidence            5677765 88999999999999998875257 69999999987532111110     000        000111100   


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch---hhhhhcc---CceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL---TTTQTLQ---LSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~---~~~~l~~---ad~viiv~~~~~~s~~~~~~  183 (295)
                         ..         ....+...+..+  .++|+|+|||++.......   .+..+..   ...+++|+.+.. ....+..
T Consensus       200 ---~~---------~~~~l~~~l~~l--~~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts-~~~~l~e  264 (374)
T PRK14722        200 ---VK---------DGGDLQLALAEL--RNKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATS-HGDTLNE  264 (374)
T ss_pred             ---cC---------CcccHHHHHHHh--cCCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCcc-ChHHHHH
Confidence               00         012234455555  5789999999954321111   1122222   244566666654 3344444


Q ss_pred             HHHHHhcCC-------CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQ-------VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~-------~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .+..+....       .++-++|+++.|....        +  ..+-.+....+.|+.
T Consensus       265 vi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~~--------~--G~~l~~~~~~~lPi~  312 (374)
T PRK14722        265 VVQAYRSAAGQPKAALPDLAGCILTKLDEASN--------L--GGVLDTVIRYKLPVH  312 (374)
T ss_pred             HHHHHHHhhcccccccCCCCEEEEeccccCCC--------c--cHHHHHHHHHCcCeE
Confidence            444444321       2366899999984321        1  335566666666654

>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional

Probab=98.64  E-value=1.3e-06  Score=79.05  Aligned_cols=170  Identities=16%  Similarity=0.182  Sum_probs=99.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      |+.|.|.+...|+||||++..|+.+|.+ +|.+|-.+-..+..-... +..         ...-.+.  .+++.      
T Consensus         1 m~~~~i~~~~s~~GKT~vt~gl~~~l~~-~g~~v~~~K~Gpd~iD~~-~~~---------~~~g~~~--~nld~------   61 (433)
T PRK13896          1 MKGFVLGGTSSGVGKTVATLATIRALED-AGYAVQPAKAGPDFIDPS-HHE---------AVAGRPS--RTLDP------   61 (433)
T ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHH-CCCeeEEEeeCCCCCCHH-HHH---------HHhCCCc--ccCCh------
Confidence            3568999999999999999999999999 999998776544321100 000         0000000  11110      


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc----hhhhhhccCceEEEeeCCCcc--hHHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ----LTTTQTLQLSGALIVSTPQDV--ALIDARKG  184 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~----~~~~~l~~ad~viiv~~~~~~--s~~~~~~~  184 (295)
                           ..     ...+.+...+.  + ..+|++||....|+-+..    ..+.....+. +|+|+.....  +...+...
T Consensus        62 -----~~-----~~~~~i~~~~~--~-~~~d~~vIEG~gGl~dg~~~s~adla~~l~~P-viLVv~~~~g~~s~aa~l~g  127 (433)
T PRK13896         62 -----WL-----SGEDGMRRNYY--R-GEGDICVVEGVMGLYDGDVSSTAMVAEALDLP-VVLVVDAKAGMESVAATALG  127 (433)
T ss_pred             -----hh-----CCHHHHHHHHH--h-hcCCEEEEECCCccccCCCCCHHHHHHHHCCC-EEEEEcCcccHHHHHHHHHH
Confidence                 00     01233444443  2 459999999998875432    1122222233 5666666555  34444555


Q ss_pred             HHHHhc---CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccc
Q 022525          185 ITMFSK---VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       185 ~~~l~~---~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                      +..+..   .++++.|+|+|++..       ..+   ...+++.... ++++++.||+++.+.
T Consensus       128 ~~~~~~~~~~~~~i~GvIlN~~~~-------~~h---~~~l~~~~~~-~i~vlG~lP~~~~~~  179 (433)
T PRK13896        128 FRAYADRIGRDIDVAGVIAQRAHG-------GRH---ADGIRDALPD-ELTYFGRIPPRDDLE  179 (433)
T ss_pred             HHHHHHhccCCCcEEEEEEECCCc-------HHH---HHHHHHhhhh-cCceeEecccCCCCC
Confidence            433333   478999999999863       110   1223344444 789999999988864

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.64  E-value=3.5e-07  Score=80.60  Aligned_cols=140  Identities=24%  Similarity=0.260  Sum_probs=86.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .++|+++ +.-||||||+.+-||+.+. ....++|.+|-+|..--....-+.     ...        ...++++.    
T Consensus       203 ~~vi~LV-GPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk-----~Ya--------~im~vp~~----  264 (407)
T COG1419         203 KRVIALV-GPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLK-----TYA--------DIMGVPLE----  264 (407)
T ss_pred             CcEEEEE-CCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHH-----HHH--------HHhCCceE----
Confidence            6888887 6779999999999999999 315679999999975422111010     000        00111110    


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc------cCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL------QLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~------~ad~viiv~~~~~~s~~~~~~  183 (295)
                                 -....+.+...+..+  .++|+|+|||.+.-.-+...+..|.      ....+.+|.+.+. ...++..
T Consensus       265 -----------vv~~~~el~~ai~~l--~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~-K~~dlke  330 (407)
T COG1419         265 -----------VVYSPKELAEAIEAL--RDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATT-KYEDLKE  330 (407)
T ss_pred             -----------EecCHHHHHHHHHHh--hcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCc-chHHHHH
Confidence                       001246777777777  5789999999954322222222211      2344555555544 4677777


Q ss_pred             HHHHHhcCCCCeeeEEecccc
Q 022525          184 GITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~  204 (295)
                      .++.+...  ++-++|+++.|
T Consensus       331 i~~~f~~~--~i~~~I~TKlD  349 (407)
T COG1419         331 IIKQFSLF--PIDGLIFTKLD  349 (407)
T ss_pred             HHHHhccC--CcceeEEEccc
Confidence            77777655  55579999998

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=98.62  E-value=2.5e-07  Score=76.71  Aligned_cols=162  Identities=19%  Similarity=0.222  Sum_probs=93.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (295)
                      +++.++-+-.|.||||+...|-..+.. .+.+.-+|.+||..-++..-.+++-...+..-..+   ..++  +-|.|...
T Consensus        19 p~~ilVvGMAGSGKTTF~QrL~~hl~~-~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvM---kqY~--LGPNGgI~   92 (366)
T KOG1532|consen   19 PVIILVVGMAGSGKTTFMQRLNSHLHA-KKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVM---KQYQ--LGPNGGIV   92 (366)
T ss_pred             CcEEEEEecCCCCchhHHHHHHHHHhh-ccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHH---HHhC--CCCCcchh
Confidence            344444488899999999999999999 89999999999988666554444322221110000   0001  11111111


Q ss_pred             CCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhh------hccC-c-eE-EEeeCCCcch----H
Q 022525          112 PSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQ------TLQL-S-GA-LIVSTPQDVA----L  178 (295)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~------l~~a-d-~v-iiv~~~~~~s----~  178 (295)
                      .+-.-    -....+.+-.+++... +.+||||||||+.+....|....      +..+ + .+ .+|-++...+    +
T Consensus        93 TsLNL----F~tk~dqv~~~iek~~-~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFM  167 (366)
T KOG1532|consen   93 TSLNL----FATKFDQVIELIEKRA-EEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFM  167 (366)
T ss_pred             hhHHH----HHHHHHHHHHHHHHhh-cccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHH
Confidence            11100    0011234446666666 88999999999876544443222      1111 2 22 2333333222    5


Q ss_pred             HHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          179 IDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       179 ~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .++...+..+-+..+|++ +++|+.+.
T Consensus       168 SNMlYAcSilyktklp~i-vvfNK~Dv  193 (366)
T KOG1532|consen  168 SNMLYACSILYKTKLPFI-VVFNKTDV  193 (366)
T ss_pred             HHHHHHHHHHHhccCCeE-EEEecccc
Confidence            677777778888888887 99999884

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=98.57  E-value=3.4e-07  Score=78.43  Aligned_cols=164  Identities=21%  Similarity=0.146  Sum_probs=97.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+.||.|+ +--|+||||+..-||+.|-+ .|++|++.-+|..-...-.-+             -....+.++.++... 
T Consensus       138 ~p~Vil~v-GVNG~GKTTTIaKLA~~l~~-~g~~VllaA~DTFRAaAiEQL-------------~~w~er~gv~vI~~~-  201 (340)
T COG0552         138 KPFVILFV-GVNGVGKTTTIAKLAKYLKQ-QGKSVLLAAGDTFRAAAIEQL-------------EVWGERLGVPVISGK-  201 (340)
T ss_pred             CcEEEEEE-ecCCCchHhHHHHHHHHHHH-CCCeEEEEecchHHHHHHHHH-------------HHHHHHhCCeEEccC-
Confidence            36777776 77899999999999999999 999999998887542211001             011223444444321 


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhcc------------CceEEEeeCCCc--
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQ------------LSGALIVSTPQD--  175 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~------------ad~viiv~~~~~--  175 (295)
                                .+........+.++..+..+||+|||||++.+....-.+..|.-            -+.++++.....  
T Consensus       202 ----------~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGq  271 (340)
T COG0552         202 ----------EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQ  271 (340)
T ss_pred             ----------CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccCh
Confidence                      01112334555555555589999999999988653222222221            122555544433  


Q ss_pred             chHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          176 VALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       176 ~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .++..+..+-+.     .++-|+|+++.+.....          ..+-.+...+++|+.
T Consensus       272 nal~QAk~F~ea-----v~l~GiIlTKlDgtAKG----------G~il~I~~~l~~PI~  315 (340)
T COG0552         272 NALSQAKIFNEA-----VGLDGIILTKLDGTAKG----------GIILSIAYELGIPIK  315 (340)
T ss_pred             hHHHHHHHHHHh-----cCCceEEEEecccCCCc----------ceeeeHHHHhCCCEE
Confidence            233333333222     34668999999843222          346667777777765

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.53  E-value=1.5e-06  Score=79.42  Aligned_cols=160  Identities=19%  Similarity=0.167  Sum_probs=85.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC-CeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ-LKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g-~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +.+|+|+ +--|+||||++..||..+....| ++|.+|++|++......-+.     .+.        ...++.+.    
T Consensus       256 g~Vi~Lv-GpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr-----~~A--------eilGVpv~----  317 (484)
T PRK06995        256 GGVFALM-GPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLR-----IYG--------KILGVPVH----  317 (484)
T ss_pred             CcEEEEE-CCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHH-----HHH--------HHhCCCee----
Confidence            5788887 67899999999999999864256 59999999986422110000     000        00011000    


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc---hhhhhhccC---ceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ---LTTTQTLQL---SGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~---~~~~~l~~a---d~viiv~~~~~~s~~~~~~  183 (295)
                        ....         ...+...+..+  .++|+++|||++......   .....+...   ...++++.... ....+..
T Consensus       318 --~~~~---------~~Dl~~aL~~L--~d~d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~-~~~~l~~  383 (484)
T PRK06995        318 --AVKD---------AADLRLALSEL--RNKHIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATS-HGDTLNE  383 (484)
T ss_pred             --ccCC---------chhHHHHHHhc--cCCCeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCC-cHHHHHH
Confidence              0000         01122233344  578999999975332111   011111111   22455554443 3355555


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .++.+...  .+-++|+|+.+.....          ..+-.+...+++++.
T Consensus       384 i~~~f~~~--~~~g~IlTKlDet~~~----------G~~l~i~~~~~lPI~  422 (484)
T PRK06995        384 VVQAYRGP--GLAGCILTKLDEAASL----------GGALDVVIRYKLPLH  422 (484)
T ss_pred             HHHHhccC--CCCEEEEeCCCCcccc----------hHHHHHHHHHCCCeE
Confidence            66665544  4568999999843221          346666667676654

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.43  E-value=2.1e-06  Score=74.61  Aligned_cols=153  Identities=16%  Similarity=0.137  Sum_probs=88.4

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecc
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSM  107 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (295)
                      ...+.||.|+ +--|+||||++..||+++.+ +|+||++|=+|.......--+....             ....+++...
T Consensus        98 K~kpsVimfV-GLqG~GKTTtc~KlA~y~kk-kG~K~~LvcaDTFRagAfDQLkqnA-------------~k~~iP~ygs  162 (483)
T KOG0780|consen   98 KGKPSVIMFV-GLQGSGKTTTCTKLAYYYKK-KGYKVALVCADTFRAGAFDQLKQNA-------------TKARVPFYGS  162 (483)
T ss_pred             cCCCcEEEEE-eccCCCcceeHHHHHHHHHh-cCCceeEEeecccccchHHHHHHHh-------------HhhCCeeEec
Confidence            3345777776 66788999999999999999 9999999999876643211111000             0111111111


Q ss_pred             ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc------hhhhhhccCceEEEeeCCCcchHHHH
Q 022525          108 GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ------LTTTQTLQLSGALIVSTPQDVALIDA  181 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~------~~~~~l~~ad~viiv~~~~~~s~~~~  181 (295)
                            ..     +....+....-++..+.+.||+||+||.+......      ........=|.+|.|.+.+..-  .+
T Consensus       163 ------yt-----e~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQ--aa  229 (483)
T KOG0780|consen  163 ------YT-----EADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQ--AA  229 (483)
T ss_pred             ------cc-----ccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccH--hH
Confidence                  00     11112334444444444899999999997654321      1122222348888888776532  22


Q ss_pred             HHHHHHHhcCCCCeeeEEeccccCCCCC
Q 022525          182 RKGITMFSKVQVPILGLVENMSCFICPH  209 (295)
Q Consensus       182 ~~~~~~l~~~~~~~~~~ViN~~~~~~~~  209 (295)
                      ....+.+. ....+-++|+++.+.+...
T Consensus       230 e~Qa~aFk-~~vdvg~vIlTKlDGhakG  256 (483)
T KOG0780|consen  230 EAQARAFK-ETVDVGAVILTKLDGHAKG  256 (483)
T ss_pred             HHHHHHHH-HhhccceEEEEecccCCCC
Confidence            22222222 2345567999999966443

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=98.42  E-value=3.8e-06  Score=71.98  Aligned_cols=95  Identities=17%  Similarity=0.087  Sum_probs=68.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+++.|+|||+..+........+..+|.+++|+.+.......+...++.+...+.+.+ +++|+.+....       . 
T Consensus        62 ~~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~i-ivvNK~D~~~~-------~-  132 (268)
T cd04170          62 KGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIPRI-IFINKMDRERA-------D-  132 (268)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECCccCCC-------C-
Confidence            67899999999765432334566778999999999888766677777788877787776 79999995321       1 


Q ss_pred             CCchhhHHHHHhCCcEEE-eecCCc
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIPIEM  241 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip~~~  241 (295)
                      ......++.+.++.+++. .+|...
T Consensus       133 ~~~~~~~l~~~~~~~~~~~~ip~~~  157 (268)
T cd04170         133 FDKTLAALQEAFGRPVVPLQLPIGE  157 (268)
T ss_pred             HHHHHHHHHHHhCCCeEEEEecccC
Confidence            123467777788877664 777544

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.40  E-value=2.1e-06  Score=76.46  Aligned_cols=157  Identities=17%  Similarity=0.158  Sum_probs=98.7

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecc
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSM  107 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (295)
                      .+.+-+|.|+ +--||||||.-+-+|+.|-+ .+.+|++.-||+.....-.-++..       +..........+.+...
T Consensus       375 ~krPYVi~fv-GVNGVGKSTNLAKIayWLlq-NkfrVLIAACDTFRsGAvEQLrtH-------v~rl~~l~~~~v~lfek  445 (587)
T KOG0781|consen  375 RKRPYVISFV-GVNGVGKSTNLAKIAYWLLQ-NKFRVLIAACDTFRSGAVEQLRTH-------VERLSALHGTMVELFEK  445 (587)
T ss_pred             cCCCeEEEEE-eecCccccchHHHHHHHHHh-CCceEEEEeccchhhhHHHHHHHH-------HHHHHHhccchhHHHhh
Confidence            3357888886 77899999999999999999 999999999998764321111110       00000000011111111


Q ss_pred             ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhh------hccCceEEEeeCCC--cchHH
Q 022525          108 GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQ------TLQLSGALIVSTPQ--DVALI  179 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~------l~~ad~viiv~~~~--~~s~~  179 (295)
                      |           .+.......+..++..+...||+|+|||++.+.+..-.+..      +..-|.++.|-.+-  ..+++
T Consensus       446 G-----------Ygkd~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~vgealvg~dsv~  514 (587)
T KOG0781|consen  446 G-----------YGKDAAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFVGEALVGNDSVD  514 (587)
T ss_pred             h-----------cCCChHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEehhhhhCcHHHH
Confidence            1           12223455667777776689999999999887654321221      22347777776553  34677


Q ss_pred             HHHHHHHHHhcCCC--CeeeEEecccc
Q 022525          180 DARKGITMFSKVQV--PILGLVENMSC  204 (295)
Q Consensus       180 ~~~~~~~~l~~~~~--~~~~~ViN~~~  204 (295)
                      .+.++-+.+.....  .+-|+|+++++
T Consensus       515 q~~~fn~al~~~~~~r~id~~~ltk~d  541 (587)
T KOG0781|consen  515 QLKKFNRALADHSTPRLIDGILLTKFD  541 (587)
T ss_pred             HHHHHHHHHhcCCCccccceEEEEecc
Confidence            77777777765432  36789999998

>COG1492 CobQ Cobyric acid synthase [Coenzyme metabolism]

Probab=98.37  E-value=1.7e-06  Score=77.83  Aligned_cols=200  Identities=16%  Similarity=0.186  Sum_probs=116.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc-------Cccc---------
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD-------MKMV---------   95 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~-------~~~~---------   95 (295)
                      +.|.+.+.-..+|||++++.|+..+++ +|++|.  -+-.|+.++..+.-.+. ..+...       ....         
T Consensus         2 ~~iMv~GT~S~~GKS~~~aglcRi~~~-~G~~V~--PFK~QNMsLNs~it~~G-~EIgraQ~~QA~Aa~i~p~v~mNPvL   77 (486)
T COG1492           2 KAIMVQGTTSDAGKSFLVAGLCRILAR-RGYRVA--PFKSQNMSLNSAITPGG-GEIGRAQALQALAAGIEPSVHMNPVL   77 (486)
T ss_pred             CccEEEeccCCcchhhhhhhhhHHHHh-cCCccC--CCchhhcccccEECCCC-cEEehhhhHHHHHcCCCCccccCCEE
Confidence            467788888899999999999999999 999996  55777777655442221 111000       1111         


Q ss_pred             --ccccCCceeeccccccCCCCCCc-c--CCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch------hhhhhccC
Q 022525           96 --PIENYGVKCMSMGFLVPSSSPVV-W--RGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL------TTTQTLQL  164 (295)
Q Consensus        96 --~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~------~~~~l~~a  164 (295)
                        |..+...+++-.|.......... +  .-......+...++.+. ..||+|++...++....++      ++.....+
T Consensus        78 LKP~sd~~sQVIv~G~~~G~~s~~~yy~~~~~~l~~~v~~s~~~l~-~~~d~Vv~EGAGSpaEiNlr~~Di~Nm~~a~~~  156 (486)
T COG1492          78 LKPCSDTGSQVIVMGKDIGRKSAVEYYQEGKGLLWVAVKESLERLD-REYDVVVIEGAGSPAEINLRDRDIANMGVAEIA  156 (486)
T ss_pred             EeecCCCceEEEEecccccccChHHHHHHHHHHHHHHHHHHHHHhh-hcccEEEEecCCChhhcCcccccccceeeehhc
Confidence              23333444444333222222211 1  11134556777777788 9999999999865432211      11111123


Q ss_pred             c-eEEEeeCCCc-chHHHHHHHHHHHhc-CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCc
Q 022525          165 S-GALIVSTPQD-VALIDARKGITMFSK-VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEM  241 (295)
Q Consensus       165 d-~viiv~~~~~-~s~~~~~~~~~~l~~-~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~  241 (295)
                      | -+|+|..=+. ..+..+..++..+.. ....+.|+|+|++...       ...+ ..-++.+.+..|.++++++|+..
T Consensus       157 dapvILV~DIdRGGvfAsl~GT~~lL~~~~r~~VkG~iINkFRGd-------~~ll-~~gik~Le~~tg~~vlGv~P~~~  228 (486)
T COG1492         157 DAPVILVGDIDRGGVFASLYGTLALLPESDRALVKGFIINKFRGD-------ESLL-DPGLKWLEELTGVPVLGVLPYLK  228 (486)
T ss_pred             CCCEEEEEeecccceeeeeeehheecCHhHhcceeEEEEeeeCCC-------HHHH-hhHHHHHHHhhCCeeEeeccccc
Confidence            2 2455544443 234444444444433 2345679999999732       1111 24477888889999999999887


Q ss_pred             ccc
Q 022525          242 DIR  244 (295)
Q Consensus       242 ~~~  244 (295)
                      ...
T Consensus       229 ~~~  231 (486)
T COG1492         229 DAL  231 (486)
T ss_pred             ccc
Confidence            654

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.26  E-value=4.4e-07  Score=76.06  Aligned_cols=38  Identities=29%  Similarity=0.321  Sum_probs=28.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc
Q 022525           39 GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP   77 (295)
Q Consensus        39 ~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~   77 (295)
                      +..|+||||.+.++...+.. .|++|.+|.+||....+.
T Consensus         3 GpaGSGKTT~~~~~~~~~~~-~~~~~~~vNLDPa~~~~~   40 (238)
T PF03029_consen    3 GPAGSGKTTFCKGLSEWLES-NGRDVYIVNLDPAVENLP   40 (238)
T ss_dssp             ESTTSSHHHHHHHHHHHHTT-T-S-EEEEE--TT-S--S
T ss_pred             CCCCCCHHHHHHHHHHHHHh-ccCCceEEEcchHhcccc
Confidence            56799999999999999999 999999999999875543

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>cd04169 RF3 RF3 subfamily

Probab=98.21  E-value=1.4e-05  Score=68.29  Aligned_cols=93  Identities=16%  Similarity=0.071  Sum_probs=61.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.++|||+..+........+..+|.+++|+.....--......++.+...+.+++ +++|+.+....       . 
T Consensus        69 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~i-ivvNK~D~~~a-------~-  139 (267)
T cd04169          69 RDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPII-TFINKLDREGR-------D-  139 (267)
T ss_pred             CCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEE-EEEECCccCCC-------C-
Confidence            67889999999754322224455678999999988765433445566666666777765 89999983211       1 


Q ss_pred             CCchhhHHHHHhCCcEEE-eecC
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIPI  239 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip~  239 (295)
                      .....+++.+.++.+++. .+|-
T Consensus       140 ~~~~~~~l~~~l~~~~~~~~~Pi  162 (267)
T cd04169         140 PLELLDEIEEELGIDCTPLTWPI  162 (267)
T ss_pred             HHHHHHHHHHHHCCCceeEEecc
Confidence            113367888888887665 6663

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.14  E-value=1.5e-05  Score=66.85  Aligned_cols=92  Identities=12%  Similarity=0.118  Sum_probs=66.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.++|||+...........+..+|.+++|+.....-.......++.+.+.+.+.+ +++|+.+....       .+
T Consensus        62 ~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~i-ivvNK~D~~~a-------~~  133 (237)
T cd04168          62 EDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTI-IFVNKIDRAGA-------DL  133 (237)
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECccccCC-------CH
Confidence            56889999999655433344566778999999988776545566677777777788876 89999984311       11


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                       ....+++.+.++..++. .+|
T Consensus       134 -~~~~~~i~~~~~~~~~~~~~p  154 (237)
T cd04168         134 -EKVYQEIKEKLSSDIVPMQKV  154 (237)
T ss_pred             -HHHHHHHHHHHCCCeEEEECC
Confidence             35688899999887765 566

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>cd00477 FTHFS Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate

Probab=98.09  E-value=6.5e-06  Score=74.42  Aligned_cols=53  Identities=28%  Similarity=0.244  Sum_probs=48.4

Q ss_pred             CCeEEEEeeCCC---CCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc
Q 022525           30 VKDVIAVASGKG---GVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP   86 (295)
Q Consensus        30 ~~~vI~i~s~kG---GvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~   86 (295)
                      .+|+|.|+|...   |.||||++.+||..|++ .|+||+++   ...|++...||.+...
T Consensus        37 ~~k~IlVTs~~PTp~GEGKTT~si~La~~la~-~Gkk~l~~---LR~PSlg~~fg~kgga   92 (524)
T cd00477          37 DGKLILVTAITPTPAGEGKTTTTIGLAQALNA-HGKKAIAC---LREPSLGPTFGIKGGA   92 (524)
T ss_pred             CCeEEEEEeCCCCCCCCCHHHHHHHHHHHHHH-hCCcEEEE---EecCCcCcccCCCCCC
Confidence            379999999888   99999999999999999 99999988   7789999999988765

FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2 fixation (acetogenesis) and the glycine synthase/reductase pathways of purinolysis. The key physiological role of this enzyme in acetogens is to catalyze the formylation of tetrahydrofolate, an initial step in the reduction of carbon dioxide and other one-carbon precursors to acetate. In purinolytic organisms, the enzymatic reaction is reversed, liberating formate from 10-formyltetrahydrofolate with concurrent production of ATP.

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=98.06  E-value=2.9e-05  Score=66.42  Aligned_cols=94  Identities=15%  Similarity=0.040  Sum_probs=64.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.++|||+...........+..+|.+++|+.....-.......++.+...+.+.+ +++|+.+....       . 
T Consensus        62 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~i-vviNK~D~~~a-------~-  132 (270)
T cd01886          62 KDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRI-AFVNKMDRTGA-------D-  132 (270)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCCCCC-------C-
Confidence            56889999999754433334566778999999988876555566778888888888876 89999994311       0 


Q ss_pred             CCchhhHHHHHhCCcEE-EeecCC
Q 022525          218 GKGGTHRTAAEMGLKVI-GEIPIE  240 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~-~~Ip~~  240 (295)
                      .....+++.+.++.... ..+|-+
T Consensus       133 ~~~~~~~l~~~l~~~~~~~~~Pis  156 (270)
T cd01886         133 FFRVVEQIREKLGANPVPLQLPIG  156 (270)
T ss_pred             HHHHHHHHHHHhCCCceEEEeccc
Confidence            11346777777776544 366744

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=97.98  E-value=6.2e-05  Score=66.35  Aligned_cols=43  Identities=37%  Similarity=0.408  Sum_probs=36.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSV   76 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~   76 (295)
                      .+++++ +--++||||+++-||-.+-+ +|++|.+||+|..++.+
T Consensus        74 ~~vmvv-G~vDSGKSTLt~~LaN~~l~-rG~~v~iiDaDvGQ~ei  116 (398)
T COG1341          74 GVVMVV-GPVDSGKSTLTTYLANKLLA-RGRKVAIIDADVGQSEI  116 (398)
T ss_pred             cEEEEE-CCcCcCHHHHHHHHHHHHhh-cCceEEEEeCCCCCccc
Confidence            456665 45579999999999999999 99999999999988664

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.97  E-value=0.0004  Score=62.74  Aligned_cols=160  Identities=21%  Similarity=0.156  Sum_probs=88.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC-CeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQ-LKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g-~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      .+.+|+++ +.-|+||||+..-||..+....| .+|.+|-+|......     .+....+        ....++.+..  
T Consensus       190 ~g~vi~lv-GpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~riga-----lEQL~~~--------a~ilGvp~~~--  253 (420)
T PRK14721        190 QGGVYALI-GPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGG-----HEQLRIY--------GKLLGVSVRS--  253 (420)
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhH-----HHHHHHH--------HHHcCCceec--
Confidence            46788886 88899999999999986654144 688888777643211     1000000        0001111100  


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc----hhhhhhcc---CceEEEeeCCCcchHHHH
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ----LTTTQTLQ---LSGALIVSTPQDVALIDA  181 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~----~~~~~l~~---ad~viiv~~~~~~s~~~~  181 (295)
                          .         .....+...+..+  .++|+|+|||+ |.....    -.+..+..   ...+++|+.+.. ....+
T Consensus       254 ----v---------~~~~dl~~al~~l--~~~d~VLIDTa-Grsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~-~~~~~  316 (420)
T PRK14721        254 ----I---------KDIADLQLMLHEL--RGKHMVLIDTV-GMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATS-SGDTL  316 (420)
T ss_pred             ----C---------CCHHHHHHHHHHh--cCCCEEEecCC-CCCcchHHHHHHHHHHhccCCCceEEEEEcCCC-CHHHH
Confidence                0         0022344445555  67999999997 554311    11112222   235666665553 34555


Q ss_pred             HHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          182 RKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       182 ~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ...+..+..  .++-++|+++.|.....          ..+-.+....+.++.
T Consensus       317 ~~~~~~f~~--~~~~~~I~TKlDEt~~~----------G~~l~~~~~~~lPi~  357 (420)
T PRK14721        317 DEVISAYQG--HGIHGCIITKVDEAASL----------GIALDAVIRRKLVLH  357 (420)
T ss_pred             HHHHHHhcC--CCCCEEEEEeeeCCCCc----------cHHHHHHHHhCCCEE
Confidence            566666554  45668999999843221          346666666666654

>PRK13506 formate--tetrahydrofolate ligase; Provisional

Probab=97.97  E-value=1.5e-05  Score=72.79  Aligned_cols=53  Identities=21%  Similarity=0.280  Sum_probs=49.1

Q ss_pred             CCeEEEEeeCCC---CCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc
Q 022525           30 VKDVIAVASGKG---GVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP   86 (295)
Q Consensus        30 ~~~vI~i~s~kG---GvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~   86 (295)
                      .+|+|.|+|.-.   |.||||++.+||..|++ .|++|  ||+ ...|++...||.+...
T Consensus        53 ~~k~IlVTs~~PTp~GEGKTT~si~La~~la~-~Gk~~--i~~-LR~Pslg~~fg~kgga  108 (578)
T PRK13506         53 KGKLVLVTAITPTPLGEGKTVTTIGLTQGLNA-LGQKV--CAC-IRQPSMGPVFGVKGGA  108 (578)
T ss_pred             CCeEEEEEecCCCCCCCCHHHHHHHHHHHHHH-hCCce--EEE-eccCCcCCccCCCCCC
Confidence            379999999888   99999999999999999 99999  899 9999999999988765

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.88  E-value=0.00011  Score=68.59  Aligned_cols=92  Identities=15%  Similarity=0.047  Sum_probs=64.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      +.+.+.++|||+..+........+..+|.+|+|+.+...-...+...++.+...+.|++ +++|+.+.....        
T Consensus        77 ~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPii-v~iNK~D~~~a~--------  147 (526)
T PRK00741         77 RDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIF-TFINKLDRDGRE--------  147 (526)
T ss_pred             CCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCCEE-EEEECCcccccC--------
Confidence            56889999999764433334556778999999998876544556677777777888865 999999842111        


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      ....++++.+.++.+++. .+|
T Consensus       148 ~~~~l~~i~~~l~~~~~p~~~P  169 (526)
T PRK00741        148 PLELLDEIEEVLGIACAPITWP  169 (526)
T ss_pred             HHHHHHHHHHHhCCCCeeEEec
Confidence            123467888888877554 555

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.86  E-value=9.4e-05  Score=60.16  Aligned_cols=68  Identities=21%  Similarity=0.269  Sum_probs=50.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++++|||+...........+..+|.+++|+.+...-.......+..+...+.+.+.+++|+.+.
T Consensus        63 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvviNK~D~  130 (195)
T cd01884          63 ANRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNKADM  130 (195)
T ss_pred             CCeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEEEeCCCC
Confidence            45678999999643322234566678999999998877555667778888888888755689999995

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.85  E-value=1.8e-05  Score=64.49  Aligned_cols=41  Identities=24%  Similarity=0.317  Sum_probs=36.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCccccc
Q 022525           39 GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMM   80 (295)
Q Consensus        39 ~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~   80 (295)
                      +..|.||||-+..+...|.. .|++|.+|.+||.+.++..-+
T Consensus         9 GPPgSGKsTYc~g~~~fls~-~gr~~~vVNLDPaNd~~~Y~~   49 (290)
T KOG1533|consen    9 GPPGSGKSTYCNGMSQFLSA-IGRPVAVVNLDPANDNLPYEC   49 (290)
T ss_pred             cCCCCCccchhhhHHHHHHH-hCCceEEEecCCcccCCCCCC
Confidence            78899999999999999999 999999999999986655433

>PRK12740 elongation factor G; Reviewed

Probab=97.83  E-value=0.00019  Score=69.47  Aligned_cols=93  Identities=17%  Similarity=0.068  Sum_probs=64.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      .+|+++++|||+..+........+..+|.+++|+.+...........+..+...+.+.+ +|+|+.+....       . 
T Consensus        58 ~~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p~i-iv~NK~D~~~~-------~-  128 (668)
T PRK12740         58 KGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRI-IFVNKMDRAGA-------D-  128 (668)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHcCCCEE-EEEECCCCCCC-------C-
Confidence            67999999999765432334556778999999999887655566667777777777776 79999984311       1 


Q ss_pred             CCchhhHHHHHhCCcEE-EeecC
Q 022525          218 GKGGTHRTAAEMGLKVI-GEIPI  239 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~-~~Ip~  239 (295)
                      .....+++.+.++.+++ ..+|.
T Consensus       129 ~~~~~~~l~~~l~~~~~~~~~p~  151 (668)
T PRK12740        129 FFRVLAQLQEKLGAPVVPLQLPI  151 (668)
T ss_pred             HHHHHHHHHHHHCCCceeEEecc
Confidence            12346677777777654 35663

>cd04167 Snu114p Snu114p subfamily

Probab=97.81  E-value=0.00016  Score=59.62  Aligned_cols=67  Identities=16%  Similarity=0.067  Sum_probs=45.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+++|+.............++.+...+.+.+ +|+|+.+.
T Consensus        69 ~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~~~~p~i-iviNK~D~  135 (213)
T cd04167          69 KSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAILEGLPIV-LVINKIDR  135 (213)
T ss_pred             CEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECccc
Confidence            46889999999765432344556678999999988765443344455555555565554 99999995

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>PLN02974 adenosylmethionine-8-amino-7-oxononanoate transaminase

Probab=97.80  E-value=0.00047  Score=67.57  Aligned_cols=63  Identities=13%  Similarity=0.129  Sum_probs=49.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCc-------eEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEecc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLS-------GALIVSTPQDVALIDARKGITMFSKVQVPILGLVENM  202 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad-------~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~  202 (295)
                      ..+|++||.+.+|+-... .. ....+|       -+|+|......++..+.-.++.++..++++.++|+|.
T Consensus       183 ~~~d~vlVEGAGGl~vPl-~~-~~~~~Dl~~~l~lPvILV~~~~LG~INhtllt~eaL~~rGi~v~gii~~~  252 (817)
T PLN02974        183 GGRVLALVETAGGVASPG-PS-GTLQCDLYRPLRLPAILVGDGRLGGISATLAAYESLLLRGYDVVAVVIED  252 (817)
T ss_pred             ccCCeEEEECCCcccccC-CC-CCCHHHHHHHhCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEEeC
Confidence            358999999999875321 10 111122       4789999999999999999999999999999999995

>COG0857 Pta BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]

Probab=97.80  E-value=0.00029  Score=62.06  Aligned_cols=194  Identities=16%  Similarity=0.218  Sum_probs=104.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccc-cCC-ceeecc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIE-NYG-VKCMSM  107 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~-~~~-~~~~~~  107 (295)
                      |++++.+++...|+|||+++.+|++.|.+ +|.+|.++     .|-. ...|.+............... ... ..++..
T Consensus         1 m~~~l~l~p~~~~~G~tsi~lgLl~~l~~-k~~kva~~-----kPI~-~~~~~~~~~~~e~~~~~~~~~l~~~~~~~~~~   73 (354)
T COG0857           1 MSRTLLLIPTETGVGKTSISLGLLRALEQ-KGLKVAYF-----KPIG-TRTGKDADDLTEEDIRATSSSLTYAEPLVLSF   73 (354)
T ss_pred             CcceEEEeccCCCccHHHHHHHHHHHHHH-cCceeEEE-----eccc-cccCCccchhHHHHHHHhhhhcccCcccchhh
Confidence            57899999999999999999999999999 99999988     4332 222222211111111110000 000 000000


Q ss_pred             -ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCC-C-----CCccchhhhhhccCceEEEeeCCCcchHHH
Q 022525          108 -GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPP-G-----TGDAQLTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       108 -~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~-~-----~~~~~~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                       -.+....     ......+.+..-...+. ..+|++++..-- .     ....+..+..-.. ..++++..+...+...
T Consensus        74 ae~L~~~~-----~~d~l~e~i~~~y~e~~-~~~~~vv~~g~~~~~~~~~~~~ln~~iA~~Ln-a~~vlva~~~~~~~~~  146 (354)
T COG0857          74 AEVLLSTG-----QDDVLLEEILANYAELA-KDADVVVVEGDVPTREGPYALDLNYEIAKNLN-AAAVLVARALLVTPYE  146 (354)
T ss_pred             HHHHhccc-----cchHHHHHHHHHHHHHh-ccCceEEeccceeccccCccccccHHHHhhcC-cchhhccccccCChhh
Confidence             0011111     12223344555555565 566666665431 1     1111222333223 3345555555555555


Q ss_pred             HHHHHHHHh----cCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccc
Q 022525          181 ARKGITMFS----KVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       181 ~~~~~~~l~----~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                      ....++...    ..+..+.|+|+|+.+.       ......+..+.++.+..+..+++.+|....+.
T Consensus       147 ~~~~i~~~~~~~~~~~~~l~gVv~N~~~~-------~~~~~~~~~l~~~~~~~~~~~~~~l~~~~ll~  207 (354)
T COG0857         147 LKSRVELALAAFGAAGNNLAGVVINNAPV-------DEAGRTEDLLAEFLESSGIAVVGVLPPNRLLR  207 (354)
T ss_pred             hhhHHHHHHHHhcccCCceEEEEecCCCh-------hhhhhhhhHHHHHhhhccccccccCCHHHHhc
Confidence            554444443    3344789999995542       12222245688888888888889999776654

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=97.73  E-value=0.00021  Score=58.79  Aligned_cols=68  Identities=12%  Similarity=0.093  Sum_probs=44.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ....+.|+|||+...........+..+|.+++|+.....-..........+...+.+.+.+|+|+.+.
T Consensus        75 ~~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~  142 (208)
T cd04166          75 PKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLLGIRHVVVAVNKMDL  142 (208)
T ss_pred             CCceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCCcEEEEEEchhc
Confidence            45678999999643211122344567899999988876544444455555555665655578999995

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=97.72  E-value=0.00017  Score=57.79  Aligned_cols=66  Identities=15%  Similarity=0.137  Sum_probs=45.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .++++++|+|+...........+..+|.+++++.............+..+...+.+++ +|+|+.+.
T Consensus        61 ~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~i~-iv~nK~D~  126 (189)
T cd00881          61 DRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGGLPII-VAINKIDR  126 (189)
T ss_pred             CEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCCCCeE-EEEECCCC
Confidence            5789999999644322334455567999999988776544455566666665566654 99999984

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>PRK08233 hypothetical protein; Provisional

Probab=97.72  E-value=0.0002  Score=57.36  Aligned_cols=38  Identities=26%  Similarity=0.313  Sum_probs=30.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|+|.|++ |+||||+|..|+..|..   ..++..|.+.+
T Consensus         3 ~~iI~I~G~~-GsGKtTla~~L~~~l~~---~~~~~~d~~~~   40 (182)
T PRK08233          3 TKIITIAAVS-GGGKTTLTERLTHKLKN---SKALYFDRYDF   40 (182)
T ss_pred             ceEEEEECCC-CCCHHHHHHHHHhhCCC---CceEEECCEEc
Confidence            4788887766 99999999999987754   37777877754

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.71  E-value=0.00043  Score=57.57  Aligned_cols=67  Identities=10%  Similarity=0.035  Sum_probs=49.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhc--cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTL--QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~--~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|||+...........+.  .+|.+++++..+..-.......+.++...+.++ .+|+|+.|.
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~-ivvvNK~D~  150 (224)
T cd04165          82 SSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPV-FVVVTKIDL  150 (224)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCE-EEEEECccc
Confidence            6788999999965332122233332  578999998887766677788888888889886 499999984

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>COG1159 Era GTPase [General function prediction only]

Probab=97.69  E-value=0.00032  Score=59.50  Aligned_cols=111  Identities=19%  Similarity=0.164  Sum_probs=76.7

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      .|+|. ++..|||||+.-      +- .|.|+.++.--+|. +.+...|...                            
T Consensus         8 fVaIi-GrPNvGKSTLlN------~l-~G~KisIvS~k~QT-TR~~I~GI~t----------------------------   50 (298)
T COG1159           8 FVAII-GRPNVGKSTLLN------AL-VGQKISIVSPKPQT-TRNRIRGIVT----------------------------   50 (298)
T ss_pred             EEEEE-cCCCCcHHHHHH------HH-hcCceEeecCCcch-hhhheeEEEE----------------------------
Confidence            45554 899999999988      44 79999999777765 3332222210                            


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc--------chhhhhhccCceEEEeeCCCcchHHHHHHH
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA--------QLTTTQTLQLSGALIVSTPQDVALIDARKG  184 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~--------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~  184 (295)
                                              .+.+.+|++|||+-..+.        ......+..+|.++.++..+..--.+....
T Consensus        51 ------------------------~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~i  106 (298)
T COG1159          51 ------------------------TDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFI  106 (298)
T ss_pred             ------------------------cCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHH
Confidence                                    067889999999532221        124456668999999998888544466667


Q ss_pred             HHHHhcCCCCeeeEEeccccC
Q 022525          185 ITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       185 ~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ++.+.+...+.+ +++|+++.
T Consensus       107 l~~lk~~~~pvi-l~iNKID~  126 (298)
T COG1159         107 LEQLKKTKTPVI-LVVNKIDK  126 (298)
T ss_pred             HHHHhhcCCCeE-EEEEcccc
Confidence            777776555665 99999984

>TIGR00503 prfC peptide chain release factor 3

Probab=97.69  E-value=0.00029  Score=65.91  Aligned_cols=92  Identities=13%  Similarity=0.023  Sum_probs=60.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.++|||+..+........+..+|.+|+|+.....-...+...++.++..+.+++ +++|+.+....       . 
T Consensus        78 ~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~Pii-vviNKiD~~~~-------~-  148 (527)
T TIGR00503        78 RDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIF-TFMNKLDRDIR-------D-  148 (527)
T ss_pred             CCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEE-EEEECccccCC-------C-
Confidence            56889999999754322334556778999999998876544455666666666677754 89999984211       0 


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      .....+++.+.++..... .+|
T Consensus       149 ~~~ll~~i~~~l~~~~~~~~~P  170 (527)
T TIGR00503       149 PLELLDEVENELKINCAPITWP  170 (527)
T ss_pred             HHHHHHHHHHHhCCCCccEEEE
Confidence            113466777777765432 444

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=97.69  E-value=6.5e-05  Score=63.25  Aligned_cols=139  Identities=16%  Similarity=0.133  Sum_probs=91.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..-.|--+|||+..+-.--.+.....+|..|+|+.+....+-.+...+-..++.|.+.+.+++|+++.....   ....+
T Consensus        73 ~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiLlarqvGvp~ivvflnK~Dmvdd~---ellel  149 (394)
T COG0050          73 ANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNKVDMVDDE---ELLEL  149 (394)
T ss_pred             CCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhhhhhhcCCcEEEEEEecccccCcH---HHHHH
Confidence            456678899997665221123333467999999999998888898888888899999988999999854211   00111


Q ss_pred             CCchhhHHHHHhCCc-EEEeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Q 022525          218 GKGGTHRTAAEMGLK-VIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPES  289 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~-~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  289 (295)
                      -....+++++.+|.+ ....|+....+...          ..+.++...+.+|.+.+-+.+....++..+|++
T Consensus       150 VemEvreLLs~y~f~gd~~Pii~gSal~al----------e~~~~~~~~i~eLm~avd~yip~Per~~dkPfl  212 (394)
T COG0050         150 VEMEVRELLSEYGFPGDDTPIIRGSALKAL----------EGDAKWEAKIEELMDAVDSYIPTPERDIDKPFL  212 (394)
T ss_pred             HHHHHHHHHHHcCCCCCCcceeechhhhhh----------cCCcchHHHHHHHHHHHHhcCCCCCCccccccc
Confidence            112366788888876 22344444444221          122346777888888887777766666666665

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.65  E-value=0.00017  Score=55.32  Aligned_cols=42  Identities=24%  Similarity=0.197  Sum_probs=32.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEE-EEEeCCCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVG-LLDADVYGPS   75 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vl-liD~D~~~~~   75 (295)
                      ++|.|++.| |+||||++..|...|.+ +|++|. +.|.|..++.
T Consensus         1 pvv~VvG~~-~sGKTTl~~~Li~~l~~-~g~~v~~ik~~~~g~~~   43 (140)
T PF03205_consen    1 PVVQVVGPK-NSGKTTLIRKLINELKR-RGYRVAVIKHTDHGQFE   43 (140)
T ss_dssp             -EEEEEEST-TSSHHHHHHHHHHHHHH-TT--EEEEEE-STTSTT
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHHHhH-cCCceEEEEEccCCCcc
Confidence            478888876 99999999999999999 999998 8888884433

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=97.61  E-value=0.00049  Score=67.06  Aligned_cols=67  Identities=18%  Similarity=0.086  Sum_probs=50.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|.+.++|||+...........+..+|.+++|+.....-.......++.+.+.+.+.+ +++|+++.
T Consensus        84 ~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~~~~p~i-vviNKiD~  150 (720)
T TIGR00490        84 NEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKPV-LFINKVDR  150 (720)
T ss_pred             CceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHHHHcCCCEE-EEEEChhc
Confidence            67999999999765433445667788999999998766444455666777666777776 99999984

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=97.60  E-value=0.00069  Score=56.21  Aligned_cols=67  Identities=21%  Similarity=0.106  Sum_probs=51.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+++|+.............++.+...+.+++ +|+|+++.
T Consensus        71 ~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~i-lviNKiD~  137 (222)
T cd01885          71 NEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPV-LVINKIDR  137 (222)
T ss_pred             CceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCc
Confidence            57889999999766544455667788999999998877666666777777776777754 99999984

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>cd01894 EngA1 EngA1 subfamily

Probab=97.54  E-value=0.00073  Score=52.30  Aligned_cols=67  Identities=16%  Similarity=0.121  Sum_probs=43.0

Q ss_pred             CCccEEEEcCCCCCCccc--------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ--------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~--------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+......        .....+..+|.++++.............+.+++.+.+.+++ +|+|+.+.
T Consensus        43 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~pii-iv~nK~D~  117 (157)
T cd01894          43 GGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKPVI-LVVNKVDN  117 (157)
T ss_pred             CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCCEE-EEEECccc
Confidence            457899999996544211        11234557899999988765322233345566666666654 99999984

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>cd03112 CobW_like The function of this protein family is unkown

Probab=97.48  E-value=0.002  Score=50.50  Aligned_cols=35  Identities=20%  Similarity=0.288  Sum_probs=26.5

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+..+--|+||||+...+...  . .|.++.++-.|..
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~--~-~~~~~~~i~~~~G   37 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE--Q-HGRKIAVIENEFG   37 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc--c-cCCcEEEEecCCC
Confidence            445688899999999987754  3 5788888766653

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>cd04163 Era Era subfamily

Probab=97.47  E-value=0.0015  Score=50.77  Aligned_cols=67  Identities=15%  Similarity=0.158  Sum_probs=41.7

Q ss_pred             CCccEEEEcCCCCCCccc--------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ--------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~--------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..++++++|+|+-.....        .....+..+|.++++...............+.+...+.+.+ +|+|+.+.
T Consensus        49 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~~i-iv~nK~Dl  123 (168)
T cd04163          49 DDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPVI-LVLNKIDL  123 (168)
T ss_pred             CCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCCEE-EEEEchhc
Confidence            357899999985332111        11233557888888888776533344455555555555654 99999984

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=97.44  E-value=0.0011  Score=51.87  Aligned_cols=42  Identities=14%  Similarity=0.185  Sum_probs=36.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |+++++|++ .-|+||||+...|...|.+ +|++|.+|-.....
T Consensus         1 m~~Il~ivG-~k~SGKTTLie~lv~~L~~-~G~rVa~iKH~hh~   42 (161)
T COG1763           1 MMKILGIVG-YKNSGKTTLIEKLVRKLKA-RGYRVATVKHAHHD   42 (161)
T ss_pred             CCcEEEEEe-cCCCChhhHHHHHHHHHHh-CCcEEEEEEecCCC
Confidence            479999984 5578999999999999999 99999999777654

>PRK00089 era GTPase Era; Reviewed

Probab=97.44  E-value=0.0018  Score=56.20  Aligned_cols=67  Identities=16%  Similarity=0.166  Sum_probs=42.4

Q ss_pred             CCccEEEEcCCCCCCcc--------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA--------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~--------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.++++|||+-....        ......+..+|.++++++....--......++.+...+.+.+ +|+|++|.
T Consensus        51 ~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~pvi-lVlNKiDl  125 (292)
T PRK00089         51 DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVI-LVLNKIDL  125 (292)
T ss_pred             CCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCCEE-EEEECCcC
Confidence            44789999999643311        112234567899999988776322334455555555555665 99999984

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=97.41  E-value=0.00054  Score=62.93  Aligned_cols=68  Identities=16%  Similarity=0.021  Sum_probs=52.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH-------HHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL-------IDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|||||+......-....+..+|.+++|+.+....+       ..+.+.+..+...+++.+.+++|+.|.
T Consensus        83 ~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~  157 (446)
T PTZ00141         83 PKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDD  157 (446)
T ss_pred             CCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEcccc
Confidence            67889999999755433344566778999999998876532       467778888888899887799999983

>PRK00007 elongation factor G; Reviewed

Probab=97.39  E-value=0.0006  Score=66.21  Aligned_cols=93  Identities=16%  Similarity=0.066  Sum_probs=65.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      .++.+.+||||+..+...-....+..+|.+++|++....--......+..+.+.+.+.+ +++|++|.....        
T Consensus        73 ~~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p~i-v~vNK~D~~~~~--------  143 (693)
T PRK00007         73 KDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVPRI-AFVNKMDRTGAD--------  143 (693)
T ss_pred             CCeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcCCCEE-EEEECCCCCCCC--------
Confidence            56889999999755432334556778899999998777656667788888888898886 999999953111        


Q ss_pred             CCchhhHHHHHhCCcEE-EeecC
Q 022525          218 GKGGTHRTAAEMGLKVI-GEIPI  239 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~-~~Ip~  239 (295)
                      .....+++.+.++.... ..||-
T Consensus       144 ~~~~~~~i~~~l~~~~~~~~ipi  166 (693)
T PRK00007        144 FYRVVEQIKDRLGANPVPIQLPI  166 (693)
T ss_pred             HHHHHHHHHHHhCCCeeeEEecC
Confidence            12346777777776443 35664

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.37  E-value=0.0004  Score=53.96  Aligned_cols=42  Identities=38%  Similarity=0.348  Sum_probs=35.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP   74 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~   74 (295)
                      +.+|.++ +..|+||||+|..|...|.. .|.+|.++|.|.--.
T Consensus         2 g~vIwlt-GlsGsGKtTlA~~L~~~L~~-~g~~~~~LDgD~lR~   43 (156)
T PF01583_consen    2 GFVIWLT-GLSGSGKTTLARALERRLFA-RGIKVYLLDGDNLRH   43 (156)
T ss_dssp             -EEEEEE-SSTTSSHHHHHHHHHHHHHH-TTS-EEEEEHHHHCT
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCcEEEecCcchhh
Confidence            4677775 88899999999999999999 999999999996543

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=97.37  E-value=0.00052  Score=53.79  Aligned_cols=41  Identities=29%  Similarity=0.341  Sum_probs=36.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |++|+|++.+ |+||||++..|...|.. .|++|..|..|...
T Consensus         1 m~vi~i~G~~-gsGKTTli~~L~~~l~~-~g~~V~~iK~~~~~   41 (159)
T cd03116           1 MKVIGFVGYS-GSGKTTLLEKLIPALSA-RGLRVAVIKHDHHD   41 (159)
T ss_pred             CeEEEEECCC-CCCHHHHHHHHHHHHHH-cCCcEEEEEecCCc
Confidence            4789998775 99999999999999999 99999999887654

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=97.36  E-value=0.00044  Score=54.03  Aligned_cols=38  Identities=24%  Similarity=0.274  Sum_probs=32.7

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|+|++. -|+||||++..|...|.. +|++|.+|..|..
T Consensus         1 vi~i~G~-~gsGKTtl~~~l~~~l~~-~G~~V~viK~~~~   38 (155)
T TIGR00176         1 VLQIVGP-KNSGKTTLIERLVKALKA-RGYRVATIKHDHH   38 (155)
T ss_pred             CEEEECC-CCCCHHHHHHHHHHHHHh-cCCeEEEEecccc
Confidence            4667655 599999999999999999 9999999998754

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.35  E-value=0.00064  Score=52.99  Aligned_cols=37  Identities=32%  Similarity=0.326  Sum_probs=33.3

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +..++.|+||||++..++..++. .|.+|++++++...
T Consensus         3 ~i~G~~G~GKT~l~~~i~~~~~~-~~~~v~~~~~e~~~   39 (165)
T cd01120           3 LVFGPTGSGKTTLALQLALNIAT-KGGKVVYVDIEEEI   39 (165)
T ss_pred             eEeCCCCCCHHHHHHHHHHHHHh-cCCEEEEEECCcch
Confidence            44688999999999999999999 99999999998664

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=97.35  E-value=0.00081  Score=54.55  Aligned_cols=67  Identities=12%  Similarity=0.085  Sum_probs=45.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.++|||+...........+..+|.+++|..............+..+...+.+++ +|+|+.+.
T Consensus        63 ~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p~i-iv~NK~Dl  129 (194)
T cd01891          63 KDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPI-VVINKIDR  129 (194)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEE-EEEECCCC
Confidence            56778999999644322233445567899999988776444444455555555677764 89999995

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>COG1160 Predicted GTPases [General function prediction only]

Probab=97.33  E-value=0.0033  Score=56.48  Aligned_cols=66  Identities=14%  Similarity=0.099  Sum_probs=46.8

Q ss_pred             CCccEEEEcCCCCCCccc----------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ----------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~----------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+|||++ +....          .+..++..||.++.|+.....-...-....+++++.+.|++ +|+|+++.
T Consensus        49 ~~~~f~lIDTgG-l~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~kpvi-LvvNK~D~  124 (444)
T COG1160          49 LGREFILIDTGG-LDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKKPVI-LVVNKIDN  124 (444)
T ss_pred             cCceEEEEECCC-CCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE-EEEEcccC
Confidence            567799999994 44211          25566778999999999887545555566667765555554 99999984

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=97.33  E-value=0.00051  Score=56.99  Aligned_cols=38  Identities=21%  Similarity=0.156  Sum_probs=34.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      |++|+|++.+ |+||||++.+|+..|.+ +|++|.+|..+
T Consensus         1 m~vi~ivG~~-gsGKTtl~~~l~~~L~~-~G~~V~viK~~   38 (229)
T PRK14494          1 MRAIGVIGFK-DSGKTTLIEKILKNLKE-RGYRVATAKHT   38 (229)
T ss_pred             CeEEEEECCC-CChHHHHHHHHHHHHHh-CCCeEEEEEec
Confidence            5789999885 99999999999999999 99999999764

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.32  E-value=0.0011  Score=51.65  Aligned_cols=34  Identities=35%  Similarity=0.550  Sum_probs=28.0

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      |-|+.+. |.||||.|..+|...+. +|++|++|-+
T Consensus         5 i~vy~g~-G~Gkt~~a~g~~~ra~~-~g~~v~~vQF   38 (159)
T cd00561           5 IQVYTGN-GKGKTTAALGLALRALG-HGYRVGVVQF   38 (159)
T ss_pred             EEEECCC-CCCHHHHHHHHHHHHHH-CCCeEEEEEE
Confidence            3344333 99999999999999999 9999999743

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.31  E-value=0.0017  Score=59.64  Aligned_cols=67  Identities=15%  Similarity=0.047  Sum_probs=43.4

Q ss_pred             CCccEEEEcCCCCCCccc--------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ--------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~--------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .++++.|+|||+......        .....+..+|.++++++....-...-....+++++.+.+++ +|+|+.+.
T Consensus        47 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~pii-lv~NK~D~  121 (435)
T PRK00093         47 LGREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKPVI-LVVNKVDG  121 (435)
T ss_pred             CCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCcEE-EEEECccC
Confidence            347799999985433111        12234567999999988766322333455666766677765 99999983

>PRK12739 elongation factor G; Reviewed

Probab=97.30  E-value=0.0011  Score=64.42  Aligned_cols=93  Identities=17%  Similarity=0.095  Sum_probs=63.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      +++.++++|||+..+........+..+|.+++|++....--......+..+.+.+.+.+ +++|++|.....        
T Consensus        71 ~~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~i-v~iNK~D~~~~~--------  141 (691)
T PRK12739         71 KGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVPRI-VFVNKMDRIGAD--------  141 (691)
T ss_pred             CCEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCCCCCC--------
Confidence            57889999999754332345566778999999998876545556677888888888886 999999953110        


Q ss_pred             CCchhhHHHHHhCCcEE-EeecC
Q 022525          218 GKGGTHRTAAEMGLKVI-GEIPI  239 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~-~~Ip~  239 (295)
                      .....+++.+.++.... ..+|.
T Consensus       142 ~~~~~~~i~~~l~~~~~~~~iPi  164 (691)
T PRK12739        142 FFRSVEQIKDRLGANAVPIQLPI  164 (691)
T ss_pred             HHHHHHHHHHHhCCCceeEEecc
Confidence            12346677777765433 35553

>cd01890 LepA LepA subfamily

Probab=97.28  E-value=0.002  Score=51.30  Aligned_cols=67  Identities=13%  Similarity=0.032  Sum_probs=41.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|||+...........+..+|.+|+|.......-......+..+...+.++ .+|+|+.+.
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~~~~~i-iiv~NK~Dl  131 (179)
T cd01890          65 QEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALENNLEI-IPVINKIDL  131 (179)
T ss_pred             CcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHHcCCCE-EEEEECCCC
Confidence            5678899999965443233344566799999998876532122222223333456665 489999984

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>PRK10218 GTP-binding protein; Provisional

Probab=97.27  E-value=0.0026  Score=60.54  Aligned_cols=67  Identities=13%  Similarity=0.033  Sum_probs=51.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|||+...........+..+|.+++|+.....-...+...+..+...+.+.+ +++|+.+.
T Consensus        66 ~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip~I-VviNKiD~  132 (607)
T PRK10218         66 NDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPI-VVINKVDR  132 (607)
T ss_pred             CCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHcCCCEE-EEEECcCC
Confidence            56889999999755433344556778999999998877656666777777777888875 89999994

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=97.27  E-value=0.00063  Score=57.23  Aligned_cols=41  Identities=29%  Similarity=0.297  Sum_probs=32.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHH-----------hCCCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALAS-----------KCQLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~-----------~~g~~VlliD~D~~~   73 (295)
                      .++++.+.||+||||++..+|..+|.           ..+.+|++++++-..
T Consensus         2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~   53 (239)
T cd01125           2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR   53 (239)
T ss_pred             ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH
Confidence            36777899999999999999998873           135689999887644

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=97.26  E-value=0.0043  Score=60.36  Aligned_cols=93  Identities=15%  Similarity=0.081  Sum_probs=62.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      .++.+.++|||+...........+..+|.+++|++....--......+..+.+.+.+.+ +++|+.+.....        
T Consensus        73 ~~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~i-vviNK~D~~~~~--------  143 (689)
T TIGR00484        73 KGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRI-AFVNKMDKTGAN--------  143 (689)
T ss_pred             CCeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcCCCEE-EEEECCCCCCCC--------
Confidence            56889999999654432334556778899999998776544555677777777788876 899999953111        


Q ss_pred             CCchhhHHHHHhCCcEE-EeecC
Q 022525          218 GKGGTHRTAAEMGLKVI-GEIPI  239 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~-~~Ip~  239 (295)
                      -....+++.+.++.... ..||.
T Consensus       144 ~~~~~~~i~~~l~~~~~~~~ipi  166 (689)
T TIGR00484       144 FLRVVNQIKQRLGANAVPIQLPI  166 (689)
T ss_pred             HHHHHHHHHHHhCCCceeEEecc
Confidence            01346677777765432 35664

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>PLN03127 Elongation factor Tu; Provisional

Probab=97.26  E-value=0.0032  Score=57.89  Aligned_cols=68  Identities=19%  Similarity=0.228  Sum_probs=50.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++++|||+.-.........+..+|.+++|++....-.......+..+...+.+.+.+++|++|.
T Consensus       122 ~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gip~iIvviNKiDl  189 (447)
T PLN03127        122 AKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNKVDV  189 (447)
T ss_pred             CCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEeecc
Confidence            45678999999654322223445567999999999876555667788888888898876689999995

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.25  E-value=0.00068  Score=53.14  Aligned_cols=51  Identities=31%  Similarity=0.238  Sum_probs=41.4

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMK   81 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g   81 (295)
                      ..+.+|.|+ +-.|.||||+|..|...|.+ .|+.|-++|-|.--..+..-+|
T Consensus        21 ~~~~viW~T-GLSGsGKSTiA~ale~~L~~-~G~~~y~LDGDnvR~gL~~dLg   71 (197)
T COG0529          21 QKGAVIWFT-GLSGSGKSTIANALEEKLFA-KGYHVYLLDGDNVRHGLNRDLG   71 (197)
T ss_pred             CCCeEEEee-cCCCCCHHHHHHHHHHHHHH-cCCeEEEecChhHhhcccCCCC
Confidence            346788887 66789999999999999999 9999999999966544444443

>cd04171 SelB SelB subfamily

Probab=97.23  E-value=0.0015  Score=51.02  Aligned_cols=67  Identities=10%  Similarity=0.052  Sum_probs=40.0

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.+.++|||+...........+..+|.+++|...+..-.......+..+...+.+.+.+|+|+.+.
T Consensus        50 ~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl  116 (164)
T cd04171          50 GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADL  116 (164)
T ss_pred             CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECccc
Confidence            3568999998643211122233457899999988765322333333444444455345599999984

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>cd01394 radB RadB

Probab=97.22  E-value=0.00077  Score=55.80  Aligned_cols=41  Identities=34%  Similarity=0.426  Sum_probs=34.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.++.| .+.+|+||||++.++|..++. .|.+|++||.+...
T Consensus        19 g~i~~i-~G~~GsGKT~l~~~~a~~~~~-~g~~v~yi~~e~~~   59 (218)
T cd01394          19 GTVTQV-YGPPGTGKTNIAIQLAVETAG-QGKKVAYIDTEGLS   59 (218)
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHHHh-cCCeEEEEECCCCC
Confidence            345554 579999999999999999999 89999999987543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.20  E-value=0.0022  Score=50.68  Aligned_cols=38  Identities=26%  Similarity=0.279  Sum_probs=31.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+..+  ..-|.||||.|..+|...+. +|++|+++-+--
T Consensus         6 Gli~v~--~g~GkGKtt~a~g~a~ra~~-~g~~v~ivQFlK   43 (173)
T TIGR00708         6 GIIIVH--TGNGKGKTTAAFGMALRALG-HGKKVGVIQFIK   43 (173)
T ss_pred             cEEEEE--CCCCCChHHHHHHHHHHHHH-CCCeEEEEEEec
Confidence            445555  33899999999999999999 999999985543

Alternate name: corrinoid adenosyltransferase.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.19  E-value=0.00092  Score=53.31  Aligned_cols=40  Identities=33%  Similarity=0.376  Sum_probs=35.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +++|+++ +-.|+||||++..|+..+.. .|.++.+||.|..
T Consensus         4 g~~i~~~-G~~GsGKST~a~~la~~l~~-~g~~v~~id~D~~   43 (175)
T PRK00889          4 GVTVWFT-GLSGAGKTTIARALAEKLRE-AGYPVEVLDGDAV   43 (175)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEEcCccH
Confidence            5777776 88899999999999999998 8999999998854

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=97.19  E-value=0.00063  Score=56.44  Aligned_cols=68  Identities=15%  Similarity=0.012  Sum_probs=43.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-------HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-------LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|||+...........+..+|.+++|+......       ...+...+..+...+.+.+.+++|+.+.
T Consensus        75 ~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl  149 (219)
T cd01883          75 EKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDD  149 (219)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEcccc
Confidence            5788999999964322122334455689999998876631       2234444445555665556689999984

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>PRK00049 elongation factor Tu; Reviewed

Probab=97.17  E-value=0.004  Score=56.42  Aligned_cols=68  Identities=21%  Similarity=0.253  Sum_probs=50.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++++|||+...........+..+|.++++++....-.......+..+...+.+.+.+++|++|.
T Consensus        73 ~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p~iiVvvNK~D~  140 (396)
T PRK00049         73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDM  140 (396)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCCCEEEEEEeecCC
Confidence            45678999999643221223455667999999999877555667778888888888876678999995

>PLN03126 Elongation factor Tu; Provisional

Probab=97.12  E-value=0.0037  Score=57.83  Aligned_cols=68  Identities=21%  Similarity=0.219  Sum_probs=50.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.+||+|+...........+..+|.+++|+.....-...+.+.+..+...+.+.+.+++|+.|.
T Consensus       142 ~~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl  209 (478)
T PLN03126        142 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNKQDQ  209 (478)
T ss_pred             CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            45678999999643322233555667899999998776656667777788888888866689999995

>PRK04296 thymidine kinase; Provisional

Probab=97.10  E-value=0.0018  Score=52.50  Aligned_cols=33  Identities=24%  Similarity=0.230  Sum_probs=29.2

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      |.++.+.-|+||||.+..++..++. +|++|+++
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~-~g~~v~i~   36 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEE-RGMKVLVF   36 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHH-cCCeEEEE
Confidence            4444578899999999999999999 99999999

>PRK07667 uridine kinase; Provisional

Probab=97.10  E-value=0.0013  Score=53.39  Aligned_cols=39  Identities=21%  Similarity=0.334  Sum_probs=34.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+|+| ++-.|+||||+|..|+..|.. .|.+|.++++|..
T Consensus        18 ~iIgI-~G~~gsGKStla~~L~~~l~~-~~~~~~~i~~Dd~   56 (193)
T PRK07667         18 FILGI-DGLSRSGKTTFVANLKENMKQ-EGIPFHIFHIDDY   56 (193)
T ss_pred             EEEEE-ECCCCCCHHHHHHHHHHHHHh-CCCcEEEEEcCcc
Confidence            56666 599999999999999999999 9999999999964

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.09  E-value=0.0015  Score=52.70  Aligned_cols=43  Identities=19%  Similarity=0.187  Sum_probs=36.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP   74 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~   74 (295)
                      ++.-.++-+..|.||||.+.++-...-. -|+++-+|.+||.+-
T Consensus         2 m~ya~lV~GpAgSGKSTyC~~~~~h~e~-~gRs~~vVNLDPAae   44 (273)
T KOG1534|consen    2 MRYAQLVMGPAGSGKSTYCSSMYEHCET-VGRSVHVVNLDPAAE   44 (273)
T ss_pred             CceeEEEEccCCCCcchHHHHHHHHHHh-hCceeEEeecCHHHH
Confidence            3444555588999999999999999999 899999999999763

>TIGR00436 era GTP-binding protein Era

Probab=97.08  E-value=0.0069  Score=51.93  Aligned_cols=66  Identities=17%  Similarity=0.111  Sum_probs=42.0

Q ss_pred             CCccEEEEcCCCCCCcc-c-------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA-Q-------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-~-------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.++++|||+-.... .       .....+..+|.++++.+.+...... ...++.+...+.+.+ +|+|+.|.
T Consensus        46 ~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~-~~i~~~l~~~~~p~i-lV~NK~Dl  119 (270)
T TIGR00436        46 GASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDG-EFVLTKLQNLKRPVV-LTRNKLDN  119 (270)
T ss_pred             CCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchH-HHHHHHHHhcCCCEE-EEEECeeC
Confidence            34568999998533210 0       1223456799999998877643332 445556665666665 99999984

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.07  E-value=0.0017  Score=48.89  Aligned_cols=40  Identities=33%  Similarity=0.302  Sum_probs=32.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ..+.++ +..|+||||++..+|..+.. .+..++.++++...
T Consensus         3 ~~~~l~-G~~G~GKTtl~~~l~~~~~~-~~~~~~~~~~~~~~   42 (148)
T smart00382        3 EVILIV-GPPGSGKTTLARALARELGP-PGGGVIYIDGEDIL   42 (148)
T ss_pred             CEEEEE-CCCCCcHHHHHHHHHhccCC-CCCCEEEECCEEcc
Confidence            455555 66999999999999999998 67789999887654

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.06  E-value=0.0012  Score=54.96  Aligned_cols=38  Identities=29%  Similarity=0.402  Sum_probs=33.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.++.+ ++..|+|||+++.+++..+++ .|.+|++||++
T Consensus        23 g~i~~i-~G~~GsGKT~l~~~la~~~~~-~~~~v~yi~~e   60 (225)
T PRK09361         23 GTITQI-YGPPGSGKTNICLQLAVEAAK-NGKKVIYIDTE   60 (225)
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHHHH-CCCeEEEEECC
Confidence            345555 589999999999999999999 99999999999

>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional

Probab=97.05  E-value=0.0013  Score=59.25  Aligned_cols=40  Identities=20%  Similarity=0.194  Sum_probs=35.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      |++|+|++.| |+||||+...|...|.. +|++|.+|-.+..
T Consensus         1 MkVi~IvG~s-gSGKTTLiekLI~~L~~-rG~rVavIKH~hH   40 (452)
T PRK14495          1 MRVYGIIGWK-DAGKTGLVERLVAAIAA-RGFSVSTVKHSHH   40 (452)
T ss_pred             CcEEEEEecC-CCCHHHHHHHHHHHHHh-CCCeEEEEeccCc
Confidence            5799999876 99999999999999999 9999999976543

>cd04110 Rab35 Rab35 subfamily

Probab=97.04  E-value=0.012  Score=47.96  Aligned_cols=66  Identities=14%  Similarity=0.110  Sum_probs=41.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++.+.. ..++..+...+..+...  ..++ .+|.|+.+.
T Consensus        54 ~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~pi-ivVgNK~Dl  122 (199)
T cd04110          54 RVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCK-VLVGNKNDD  122 (199)
T ss_pred             EEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCE-EEEEECccc
Confidence            456889999864332223334455688888887764 45666666666665543  2344 589999984

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>TIGR02012 tigrfam_recA protein RecA

Probab=97.04  E-value=0.0016  Score=56.87  Aligned_cols=40  Identities=20%  Similarity=0.269  Sum_probs=34.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++-|+ +..|+||||++.+++...++ .|.+|++||+...
T Consensus        55 G~iteI~-G~~GsGKTtLaL~~~~~~~~-~g~~v~yId~E~~   94 (321)
T TIGR02012        55 GRIIEIY-GPESSGKTTLALHAIAEAQK-AGGTAAFIDAEHA   94 (321)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCcEEEEcccch
Confidence            4566665 56899999999999999999 9999999998753

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]

Probab=97.04  E-value=0.0015  Score=49.70  Aligned_cols=54  Identities=28%  Similarity=0.218  Sum_probs=42.4

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      ..+-+|.++ +-.|.||||+|..|..+|-+ +|+-+..+|-|.-...+..-+|...
T Consensus        29 qkGcviWiT-GLSgSGKStlACaL~q~L~q-rgkl~Y~LDGDNvRhGLN~DL~F~a   82 (207)
T KOG0635|consen   29 QKGCVIWIT-GLSGSGKSTLACALSQALLQ-RGKLTYILDGDNVRHGLNKDLGFKA   82 (207)
T ss_pred             CCCcEEEEe-ccCCCCchhHHHHHHHHHHh-cCceEEEecCcccccccccccCcch
Confidence            347888887 56789999999999999999 9999999998865544444444433

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.03  E-value=0.0022  Score=58.89  Aligned_cols=68  Identities=16%  Similarity=0.004  Sum_probs=51.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH-------HHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL-------IDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|||+|+...........+..+|.+|+|+......+       ..+.+.+..+...+++.+.+++|+.|.
T Consensus        83 ~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~  157 (447)
T PLN00043         83 TKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDA  157 (447)
T ss_pred             CCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccC
Confidence            56889999999754433344566778999999999887544       356677777777899877789999984

>PRK05973 replicative DNA helicase; Provisional

Probab=97.00  E-value=0.0014  Score=54.78  Aligned_cols=41  Identities=15%  Similarity=0.159  Sum_probs=36.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      -.+.+.++..|+|||+++.+++...++ .|.+|+++.++...
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~a~-~Ge~vlyfSlEes~  104 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEAMK-SGRTGVFFTLEYTE  104 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeEEEEEEeCCH
Confidence            445666799999999999999999999 89999999998754

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.99  E-value=0.0083  Score=46.72  Aligned_cols=66  Identities=18%  Similarity=0.159  Sum_probs=41.9

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.++|+|+...........+..+|.++++..... .++..+...+..+..   .+.++ .+|.|+.+.
T Consensus        48 ~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pi-vvv~nK~D~  117 (164)
T smart00175       48 RVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVVI-MLVGNKSDL  117 (164)
T ss_pred             EEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeE-EEEEEchhc
Confidence            4678899998643322233444557898888887765 356666555555443   23444 599999984

Rab GTPases are implicated in vesicle trafficking.

>cd00880 Era_like Era (E

Probab=96.99  E-value=0.0062  Score=46.69  Aligned_cols=66  Identities=20%  Similarity=0.121  Sum_probs=43.0

Q ss_pred             CccEEEEcCCCCCCccc-------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQ-------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~-------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .++++++|+|+......       .....+..+|.++++..+..................+.+.+ +|+|+.+.
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~~i-vv~nK~D~  116 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEEKLLELLRERGKPVL-LVLNKIDL  116 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCeEE-EEEEcccc
Confidence            68899999996433211       12234557899888888877654444444555555666655 99999984

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>PRK06696 uridine kinase; Validated

Probab=96.98  E-value=0.0018  Score=53.82  Aligned_cols=41  Identities=24%  Similarity=0.157  Sum_probs=34.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.+|+| ++..|+||||+|..|+..|.. .|.+|+.+.+|-..
T Consensus        22 ~~iI~I-~G~sgsGKSTlA~~L~~~l~~-~g~~v~~~~~Ddf~   62 (223)
T PRK06696         22 PLRVAI-DGITASGKTTFADELAEEIKK-RGRPVIRASIDDFH   62 (223)
T ss_pred             ceEEEE-ECCCCCCHHHHHHHHHHHHHH-cCCeEEEecccccc
Confidence            356666 689999999999999999999 89999998777554

>PTZ00416 elongation factor 2; Provisional

Probab=96.96  E-value=0.0046  Score=61.30  Aligned_cols=67  Identities=16%  Similarity=0.061  Sum_probs=52.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|-+.++|||+..+...-....+..+|.+|+|+.+...-...+...++.+...+.+.+ +++|+.|.
T Consensus        90 ~~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~~~p~i-v~iNK~D~  156 (836)
T PTZ00416         90 QPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQERIRPV-LFINKVDR  156 (836)
T ss_pred             CceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHcCCCEE-EEEEChhh
Confidence            46779999999766543345666778999999999887666667788888888887775 89999984

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.95  E-value=0.023  Score=46.59  Aligned_cols=39  Identities=26%  Similarity=0.386  Sum_probs=31.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .++|+|+ +--|+||||+..++...+..  +.+|.++..|+.
T Consensus        22 ~~~i~~~-G~~gsGKTTli~~l~~~~~~--~~~v~v~~~~~~   60 (207)
T TIGR00073        22 LVVLNFM-SSPGSGKTTLIEKLIDNLKD--EVKIAVIEGDVI   60 (207)
T ss_pred             cEEEEEE-CCCCCCHHHHHHHHHHHHhc--CCeEEEEECCCC
Confidence            5777775 77899999999999887654  579999997764

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=96.94  E-value=0.0042  Score=59.07  Aligned_cols=67  Identities=12%  Similarity=0.072  Sum_probs=52.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +++.+.|+|||+..+........+..+|.+++|+.........+...+..+...+++.+ +|+|+.|.
T Consensus        62 ~~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip~I-VviNKiD~  128 (594)
T TIGR01394        62 NGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPI-VVINKIDR  128 (594)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCCCCEE-EEEECCCC
Confidence            56889999999754433334556778999999999877666777788888888888875 99999994

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>COG2403 Predicted GTPase [General function prediction only]

Probab=96.92  E-value=0.017  Score=50.56  Aligned_cols=38  Identities=34%  Similarity=0.406  Sum_probs=36.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      ..+|+|++..-|+|||+++.-+|..|++ +|++|++|=.
T Consensus       126 kPviaV~atrtg~GKsaVS~~v~r~l~e-rgyrv~vVrh  163 (449)
T COG2403         126 KPVIAVTATRTGVGKSAVSRYVARLLRE-RGYRVCVVRH  163 (449)
T ss_pred             CceEEEEEeccccchhHHHHHHHHHHHH-cCCceEEEec
Confidence            4899999999999999999999999999 9999999965

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.91  E-value=0.0017  Score=52.14  Aligned_cols=38  Identities=21%  Similarity=0.104  Sum_probs=34.1

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+..+..|+|||+++..+++..++ .|.+|+++.++...
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~-~g~~v~~~s~e~~~   39 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLA-RGEPGLYVTLEESP   39 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH-CCCcEEEEECCCCH
Confidence            456799999999999999999999 99999999988654

A related protein is found in archaea.

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.91  E-value=0.0016  Score=54.83  Aligned_cols=35  Identities=26%  Similarity=0.252  Sum_probs=31.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      -.+..+++|+|||+++.++|..+.+ .|++|+++++
T Consensus       101 ~~~l~G~~GtGKThLa~aia~~l~~-~g~~v~~it~  135 (244)
T PRK07952        101 SFIFSGKPGTGKNHLAAAICNELLL-RGKSVLIITV  135 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEEH
Confidence            4566799999999999999999999 9999999954

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.88  E-value=0.0042  Score=52.01  Aligned_cols=40  Identities=20%  Similarity=0.260  Sum_probs=34.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.++ +..|+|||+++.++++..++ +|.+|++++++..
T Consensus        25 g~~~~i~-G~~GsGKt~l~~~~~~~~~~-~g~~~~y~~~e~~   64 (234)
T PRK06067         25 PSLILIE-GDHGTGKSVLSQQFVYGALK-QGKKVYVITTENT   64 (234)
T ss_pred             CcEEEEE-CCCCCChHHHHHHHHHHHHh-CCCEEEEEEcCCC
Confidence            3555554 89999999999999999999 9999999999743

>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []

Probab=96.88  E-value=0.013  Score=51.47  Aligned_cols=42  Identities=26%  Similarity=0.277  Sum_probs=36.4

Q ss_pred             CeEEEEeeC-CCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASG-KGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~-kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+||+|.|- -||+|||-++.-|+..|.+ +|++|.+|.-.+..
T Consensus        35 vpVIsVGNltvGGTGKTP~v~~L~~~L~~-~G~~~~IlSRGYg~   77 (326)
T PF02606_consen   35 VPVISVGNLTVGGTGKTPLVIWLARLLQA-RGYRPAILSRGYGR   77 (326)
T ss_pred             CcEEEEcccccCCCCchHHHHHHHHHHHh-cCCceEEEcCCCCC
Confidence            589999875 4799999999999999999 99999999765543

This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=96.88  E-value=0.019  Score=45.17  Aligned_cols=67  Identities=15%  Similarity=0.109  Sum_probs=42.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+|+...........+..+|.++++.+. +..++..+...+..+.+.   +.++ .+|.|+.+.
T Consensus        50 ~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-iiv~nK~Dl  120 (167)
T cd01867          50 KKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVER-MLVGNKCDM  120 (167)
T ss_pred             EEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcE-EEEEECccc
Confidence            346788999997544223334445678998888765 344666666655555542   3444 489999985

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>cd00154 Rab Rab family

Probab=96.87  E-value=0.013  Score=45.01  Aligned_cols=67  Identities=16%  Similarity=0.161  Sum_probs=45.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC---CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ---VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~---~~~~~~ViN~~~~  205 (295)
                      ..+++.++|+|+...........+..+|.++++..... .++..+...+..+....   .++ .+|+|+.+.
T Consensus        47 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK~D~  117 (159)
T cd00154          47 KTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPI-ILVGNKIDL  117 (159)
T ss_pred             EEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcE-EEEEEcccc
Confidence            45789999999754432344555667899988888765 34666666666665533   444 599999985

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.002  Score=57.11  Aligned_cols=37  Identities=30%  Similarity=0.408  Sum_probs=31.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      -+...++..|+||||+-..++..+|+ ++ +||+|.-..
T Consensus        94 s~iLIgGdPGIGKSTLLLQva~~lA~-~~-~vLYVsGEE  130 (456)
T COG1066          94 SVILIGGDPGIGKSTLLLQVAARLAK-RG-KVLYVSGEE  130 (456)
T ss_pred             cEEEEccCCCCCHHHHHHHHHHHHHh-cC-cEEEEeCCc
Confidence            44555899999999999999999999 88 999996553

>cd04127 Rab27A Rab27a subfamily

Probab=96.85  E-value=0.02  Score=45.44  Aligned_cols=67  Identities=13%  Similarity=0.136  Sum_probs=43.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+-|+|+|+...........+..+|.++++.+.. ..++..+...+..+...    +.+ +.+|.|+.|.
T Consensus        61 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl  132 (180)
T cd04127          61 QRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPD-IVLCGNKADL  132 (180)
T ss_pred             CEEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEeCccc
Confidence            4567889999964332223344456789888888765 45667776666655442    334 4589999985

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=96.85  E-value=0.0046  Score=51.08  Aligned_cols=30  Identities=33%  Similarity=0.337  Sum_probs=23.5

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .++-++.|+||||+|.+|+        .++++++.|..
T Consensus        15 ~liyG~~G~GKtt~a~~~~--------~~~~~~~~d~~   44 (220)
T TIGR01618        15 YLIYGKPGTGKTSTIKYLP--------GKTLVLSFDMS   44 (220)
T ss_pred             EEEECCCCCCHHHHHHhcC--------CCCEEEecccc
Confidence            4445999999999887652        37899999963

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>cd01864 Rab19 Rab19 subfamily

Probab=96.85  E-value=0.012  Score=46.02  Aligned_cols=66  Identities=15%  Similarity=0.104  Sum_probs=42.5

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++.+.+.. ++..+...+..+..   .+.++ .+|.|+.+.
T Consensus        51 ~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~Dl  120 (165)
T cd01864          51 RVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVL-LLIGNKCDL  120 (165)
T ss_pred             EEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcE-EEEEECccc
Confidence            36789999997543222333444568988888877664 55665555555544   23445 489999985

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=96.84  E-value=0.006  Score=55.89  Aligned_cols=68  Identities=15%  Similarity=0.116  Sum_probs=44.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc--chHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD--VALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~--~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.++|||+.-.........+..+|.+++|++...  .-.......+..+...+.+.+.+++|+.|.
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl  151 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDA  151 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEcccc
Confidence            57889999999643211122344567899999988765  222334445555555666656689999985

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.81  E-value=0.011  Score=45.95  Aligned_cols=67  Identities=10%  Similarity=0.122  Sum_probs=42.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+++.|.|+|+...........+..+|.++++...+. .++..+...+..+.+  .+.|++ +|.|+.|.
T Consensus        49 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p~i-iv~nK~Dl  118 (162)
T cd04106          49 EDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMV-LVQTKIDL  118 (162)
T ss_pred             CEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEE-EEEEChhc
Confidence            45779999999754322333444567888888877543 355555555544443  355654 99999985

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.80  E-value=0.003  Score=51.49  Aligned_cols=41  Identities=37%  Similarity=0.327  Sum_probs=35.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.+|+++ +..|+||||++..|+..|.. .|..++++|.|...
T Consensus        24 ~~~i~i~-G~~GsGKSTla~~l~~~l~~-~~~~~~~ld~d~~~   64 (198)
T PRK03846         24 GVVLWFT-GLSGSGKSTVAGALEEALHE-LGVSTYLLDGDNVR   64 (198)
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHHHh-CCCCEEEEcCEeHH
Confidence            5788886 66799999999999999998 89999999888654

>CHL00071 tufA elongation factor Tu

Probab=96.78  E-value=0.0085  Score=54.58  Aligned_cols=68  Identities=21%  Similarity=0.229  Sum_probs=50.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++++|||+.-.........+..+|.+++++.+...-.......+..+...+.+.+.+++|+.|.
T Consensus        73 ~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~  140 (409)
T CHL00071         73 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKEDQ  140 (409)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccCC
Confidence            45678999999633221233455667999999998887656677778888888888866689999995

>cd01882 BMS1 Bms1

Probab=96.78  E-value=0.016  Score=48.20  Aligned_cols=64  Identities=8%  Similarity=-0.039  Sum_probs=44.9

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ...++++|||+.+.   .....+..+|.++++++....--......+..+...+.+.+.+|+|+.+.
T Consensus        82 ~~~i~~vDtPg~~~---~~l~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~  145 (225)
T cd01882          82 KRRLTFIECPNDIN---AMIDIAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDL  145 (225)
T ss_pred             CceEEEEeCCchHH---HHHHHHHhcCEEEEEEecCcCCCHHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            44578999996542   22344567899999988765444455667777777777765579999984

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>PRK12736 elongation factor Tu; Reviewed

Probab=96.78  E-value=0.016  Score=52.62  Aligned_cols=68  Identities=22%  Similarity=0.252  Sum_probs=49.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++++|||+...........+..+|.+++|+.....-...+...+..+...+.+.+.+++|+.|.
T Consensus        73 ~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~~~IvviNK~D~  140 (394)
T PRK12736         73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNKVDL  140 (394)
T ss_pred             CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCEEEEEEEecCC
Confidence            45678999999643321223445567899999998877555666777778888888876689999994

>cd01866 Rab2 Rab2 subfamily

Probab=96.77  E-value=0.02  Score=45.01  Aligned_cols=65  Identities=14%  Similarity=0.091  Sum_probs=41.9

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      ..+.|.|+|+...........+..+|.++++.+.. ..++..+...+..+.+.   +.++ .+|.|+.+.
T Consensus        53 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pv-ivv~nK~Dl  121 (168)
T cd01866          53 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTI-MLIGNKCDL  121 (168)
T ss_pred             EEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcE-EEEEECccc
Confidence            46889999864332233334455788888888865 45666666666655442   3444 599999884

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>PRK15453 phosphoribulokinase; Provisional

Probab=96.74  E-value=0.0035  Score=53.42  Aligned_cols=43  Identities=19%  Similarity=0.384  Sum_probs=37.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP   74 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~   74 (295)
                      ...+|+|+ +-.|+||||++..|+..|.. .+.++.+|+.|....
T Consensus         4 k~piI~It-G~SGsGKTTva~~l~~if~~-~~~~~~vi~~D~yh~   46 (290)
T PRK15453          4 KHPIIAVT-GSSGAGTTTVKRAFEKIFRR-ENINAAVVEGDSFHR   46 (290)
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHHhh-cCCCeEEEecccccc
Confidence            35788885 78899999999999999988 888999999997663

>TIGR00485 EF-Tu translation elongation factor TU

Probab=96.74  E-value=0.011  Score=53.57  Aligned_cols=68  Identities=22%  Similarity=0.268  Sum_probs=49.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.++|||+...........+..+|.+++|+.....-...+.+.+..+...+.+.+.+++|+.|.
T Consensus        73 ~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl  140 (394)
T TIGR00485        73 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNKCDM  140 (394)
T ss_pred             CCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEeccc
Confidence            45678999999643321223444556799999998877555666778888888888877678999984

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.73  E-value=0.036  Score=43.00  Aligned_cols=67  Identities=16%  Similarity=0.148  Sum_probs=42.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++.... ..++.........+.+.    +.++ .+|+|+.+.
T Consensus        46 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi-iiv~NK~D~  117 (164)
T cd04139          46 EDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPL-LLVGNKCDL  117 (164)
T ss_pred             EEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEEcccc
Confidence            3567899999975443344445566778777776543 34555565555555443    4454 599999985

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=96.73  E-value=0.0023  Score=51.61  Aligned_cols=67  Identities=18%  Similarity=0.174  Sum_probs=53.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+||||+...........+..+|.+|+|+.+...-...+...+..+...+.+ +.+++|++|.
T Consensus        68 ~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p-~ivvlNK~D~  134 (188)
T PF00009_consen   68 NNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIP-IIVVLNKMDL  134 (188)
T ss_dssp             SSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-S-EEEEEETCTS
T ss_pred             cccceeecccccccceeecccceecccccceeeeecccccccccccccccccccccc-eEEeeeeccc
Confidence            789999999997544333445667789999999999887777888999999999999 4599999994

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=96.72  E-value=0.0047  Score=53.10  Aligned_cols=43  Identities=30%  Similarity=0.436  Sum_probs=33.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHH---hCC------CeEEEEEeCCCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALAS---KCQ------LKVGLLDADVYGPS   75 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~---~~g------~~VlliD~D~~~~~   75 (295)
                      +..|.-+-||+||||++..|+.+|+.   ..|      .+|++|.|....++
T Consensus        90 ~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~  141 (402)
T COG3598          90 YVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYRED  141 (402)
T ss_pred             eeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHH
Confidence            45566699999999999999999995   124      46888877766544

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.72  E-value=0.0037  Score=51.31  Aligned_cols=39  Identities=28%  Similarity=0.330  Sum_probs=34.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.++.|+ +..|+|||+++..++...+. .|.+|+.||++.
T Consensus        12 g~i~~i~-G~~GsGKT~l~~~~~~~~~~-~g~~v~yi~~e~   50 (209)
T TIGR02237        12 GTITQIY-GPPGSGKTNICMILAVNAAR-QGKKVVYIDTEG   50 (209)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCC
Confidence            4566664 79999999999999999999 899999999985

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK07560 elongation factor EF-2; Reviewed

Probab=96.71  E-value=0.0053  Score=60.13  Aligned_cols=67  Identities=16%  Similarity=0.083  Sum_probs=50.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|-+.+||||+..+........+..+|.+++|+.....-...+...+..+.+.+.+.+ +++|+.|.
T Consensus        85 ~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~~~~~i-v~iNK~D~  151 (731)
T PRK07560         85 KEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVKPV-LFINKVDR  151 (731)
T ss_pred             CcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHHHcCCCeE-EEEECchh
Confidence            46778999999765533445566778999999988777655567777777666777764 89999984

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.70  E-value=0.026  Score=44.13  Aligned_cols=66  Identities=15%  Similarity=0.145  Sum_probs=41.0

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      .+.+-|+|+|+...........+..+|.++++.+.+. .++..+...+..+.+.   +.++ .+|.|+.+.
T Consensus        50 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~-iiv~nK~Dl  119 (166)
T cd01869          50 TIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNK-LLVGNKCDL  119 (166)
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcE-EEEEEChhc
Confidence            4567899998644322222334456899988887644 4566666555555442   3444 589999884

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>PHA02542 41 41 helicase; Provisional

Probab=96.68  E-value=0.0028  Score=58.55  Aligned_cols=42  Identities=19%  Similarity=0.139  Sum_probs=37.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP   74 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~   74 (295)
                      .-+.++++..|+||||++.|+|...++ .|++|++++++-...
T Consensus       190 G~LiiIaarPgmGKTtfalniA~~~a~-~g~~Vl~fSLEM~~~  231 (473)
T PHA02542        190 KTLNVLLAGVNVGKSLGLCSLAADYLQ-QGYNVLYISMEMAEE  231 (473)
T ss_pred             CcEEEEEcCCCccHHHHHHHHHHHHHh-cCCcEEEEeccCCHH
Confidence            456777899999999999999999998 999999999987654

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.67  E-value=0.05  Score=42.37  Aligned_cols=67  Identities=18%  Similarity=0.106  Sum_probs=41.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+....+.+.+    .+.|+ .+|.|+.+.
T Consensus        46 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-i~v~nK~Dl  117 (164)
T smart00173       46 EVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPI-VLVGNKCDL  117 (164)
T ss_pred             EEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            34678899998644432333344557888888877654 455555554444433    23454 489999984

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PRK15494 era GTPase Era; Provisional

Probab=96.67  E-value=0.019  Score=50.97  Aligned_cols=66  Identities=8%  Similarity=0.089  Sum_probs=40.2

Q ss_pred             CCccEEEEcCCCCCCcc-c----h---hhhhhccCceEEEeeCCCcchHHHH-HHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA-Q----L---TTTQTLQLSGALIVSTPQDVALIDA-RKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-~----~---~~~~l~~ad~viiv~~~~~~s~~~~-~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +++.++++|||+..... .    +   ....+..||.++++++... ++... ...++.+...+.+.+ +|+|+.|.
T Consensus        98 ~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~-s~~~~~~~il~~l~~~~~p~I-lViNKiDl  172 (339)
T PRK15494         98 KDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLK-SFDDITHNILDKLRSLNIVPI-FLLNKIDI  172 (339)
T ss_pred             CCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCC-CCCHHHHHHHHHHHhcCCCEE-EEEEhhcC
Confidence            44668999999642210 0    1   1123557899999887654 33333 345556665666665 79999995

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=96.66  E-value=0.0099  Score=58.18  Aligned_cols=66  Identities=15%  Similarity=0.121  Sum_probs=48.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|||+...........+..+|.+|+|+..+......+...+..+...+.+++ +++|+.|.
T Consensus       336 ~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~~~vPiI-VviNKiDl  401 (787)
T PRK05306        336 GGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVPII-VAINKIDK  401 (787)
T ss_pred             CEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHhcCCcEE-EEEECccc
Confidence            4678999999755433333445667899999998877656666777777777888855 99999984

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.65  E-value=0.0038  Score=53.20  Aligned_cols=39  Identities=23%  Similarity=0.178  Sum_probs=34.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      -.+.++.+..|+|||+++.+++...++ +|.+|++|+++.
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~a~-~Ge~vlyis~Ee   74 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQAS-RGNPVLFVTVES   74 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcEEEEEecC
Confidence            345555799999999999999999999 999999999984

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.65  E-value=0.0099  Score=47.77  Aligned_cols=37  Identities=30%  Similarity=0.297  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.++.+  .-.|.||||.|..+|...+. +|.+|++|-+=
T Consensus        23 g~v~v~--~g~GkGKtt~a~g~a~ra~g-~G~~V~ivQFl   59 (191)
T PRK05986         23 GLLIVH--TGNGKGKSTAAFGMALRAVG-HGKKVGVVQFI   59 (191)
T ss_pred             CeEEEE--CCCCCChHHHHHHHHHHHHH-CCCeEEEEEEe
Confidence            344444  77899999999999999999 99999999654

>cd04118 Rab24 Rab24 subfamily

Probab=96.63  E-value=0.045  Score=44.06  Aligned_cols=66  Identities=11%  Similarity=0.053  Sum_probs=40.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      .+.+-|+|+++..............+|.++++...+. .++......++.+...  +.++ .+|.|+.+.
T Consensus        49 ~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~pi-ilv~nK~Dl  117 (193)
T cd04118          49 VVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKI-YLCGTKSDL  117 (193)
T ss_pred             EEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCE-EEEEEcccc
Confidence            3556788998643322222333447898888887643 4566655566665543  3454 599999984

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.62  E-value=0.032  Score=43.38  Aligned_cols=68  Identities=13%  Similarity=0.108  Sum_probs=43.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++..+. ..++..+...+..+....  ...+.+|.|+.+.
T Consensus        48 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~  118 (163)
T cd01860          48 TTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADL  118 (163)
T ss_pred             EEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccc
Confidence            4566889999865332222233445689888888765 446777776666665543  1234589999884

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd04113 Rab4 Rab4 subfamily

Probab=96.62  E-value=0.021  Score=44.40  Aligned_cols=67  Identities=15%  Similarity=0.069  Sum_probs=41.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+.. ++..+...+..+..   .+.+ +.+|.|+.+.
T Consensus        47 ~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iivv~nK~D~  117 (161)
T cd04113          47 KRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIV-VILVGNKSDL  117 (161)
T ss_pred             EEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEEchhc
Confidence            457789999996433222334445678888888877653 45555555554432   3444 4599999985

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>PRK05433 GTP-binding protein LepA; Provisional

Probab=96.61  E-value=0.01  Score=56.60  Aligned_cols=67  Identities=15%  Similarity=0.088  Sum_probs=45.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|.+.|+|||+..+........+..+|.+|+|++....--......+..+...+.+++ +|+|+.|.
T Consensus        72 ~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~~~lpiI-vViNKiDl  138 (600)
T PRK05433         72 ETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLEII-PVLNKIDL  138 (600)
T ss_pred             CcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEE-EEEECCCC
Confidence            46889999999755433333455678999999998866433334444444455677754 99999994

>PRK12735 elongation factor Tu; Reviewed

Probab=96.61  E-value=0.024  Score=51.43  Aligned_cols=68  Identities=22%  Similarity=0.274  Sum_probs=48.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +...++++|||+...........+..+|.+++++.....-...+.+.+..+...+.+.+.+++|+.|.
T Consensus        73 ~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl  140 (396)
T PRK12735         73 ANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDM  140 (396)
T ss_pred             CCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCC
Confidence            44568999999643221223455667899999988876545566677777777888876678999995

>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]

Probab=96.61  E-value=0.02  Score=49.90  Aligned_cols=44  Identities=25%  Similarity=0.152  Sum_probs=37.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSV   76 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~   76 (295)
                      ++++.++ +.--+||||++.-|-.+..+ .|++++.+|+|+++++.
T Consensus       103 GPrv~vV-Gp~d~GKsTl~r~L~nyavk-~gr~Plfv~LDvgQ~si  146 (415)
T KOG2749|consen  103 GPRVMVV-GPTDVGKSTLCRILLNYAVK-QGRRPLFVELDVGQGSI  146 (415)
T ss_pred             CCEEEEE-CCCccchHHHHHHHHHHHHH-cCCcceEEEcCCCCCce
Confidence            4555554 45579999999999999999 89999999999999864

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=96.61  E-value=0.13  Score=41.76  Aligned_cols=67  Identities=15%  Similarity=0.063  Sum_probs=43.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+++......+....+..+|.+|++.+.. ..++..+....+.+..       .+.|+ .+|.|+.|.
T Consensus        48 ~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~pi-ilv~NK~Dl  122 (201)
T cd04107          48 TVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPC-LLLANKCDL  122 (201)
T ss_pred             CEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcE-EEEEECCCc
Confidence            5678899999975432233344456789888887765 4566766655555432       23444 599999985

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=96.61  E-value=0.0045  Score=59.64  Aligned_cols=68  Identities=16%  Similarity=0.099  Sum_probs=46.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++|+|||+...........+..+|.+++|+.........+.+.+..+...+.+.+.+++|+.|.
T Consensus       102 ~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~~~~~iivvvNK~D~  169 (632)
T PRK05506        102 PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLLGIRHVVLAVNKMDL  169 (632)
T ss_pred             CCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHHhCCCeEEEEEEeccc
Confidence            56789999999643211223445678899999988866544445555666666676666689999985

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=96.60  E-value=0.026  Score=44.87  Aligned_cols=66  Identities=17%  Similarity=0.184  Sum_probs=39.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .|.+.|+|+|+...........+..++.++++...+. .++..+....+.+.+    .+.+. .+|.|+.+.
T Consensus        48 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl  118 (180)
T cd04137          48 DYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPI-VLVGNKSDL  118 (180)
T ss_pred             EEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEEchhh
Confidence            4778999998643322222334445777777765544 456666555554433    24455 499999985

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=96.59  E-value=0.0069  Score=57.89  Aligned_cols=66  Identities=15%  Similarity=0.108  Sum_probs=48.8

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .-+.|+|||+.-.........+..+|.+++|+..+..-...+...+..+...+.+.+.+|+|+.|.
T Consensus        51 ~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDl  116 (614)
T PRK10512         51 RVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTKADR  116 (614)
T ss_pred             cEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCcc
Confidence            447899999643321223445667899999999887666777777888877888876699999984

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.57  E-value=0.0037  Score=50.08  Aligned_cols=38  Identities=26%  Similarity=0.364  Sum_probs=33.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |+| ++..|+||||+|..|+..+.. .|.++.+|..|-..
T Consensus         2 i~i-~G~sgsGKttla~~l~~~l~~-~~~~~~~i~~Ddf~   39 (179)
T cd02028           2 VGI-AGPSGSGKTTFAKKLSNQLRV-NGIGPVVISLDDYY   39 (179)
T ss_pred             EEE-ECCCCCCHHHHHHHHHHHHHH-cCCCEEEEehhhcc
Confidence            444 589999999999999999999 89999999988654

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd01868 Rab11_like Rab11-like

Probab=96.55  E-value=0.032  Score=43.59  Aligned_cols=68  Identities=15%  Similarity=0.104  Sum_probs=41.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..++.++++.... ..++..+.+.+..+.+..  ...+.+|.|+.+.
T Consensus        50 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl  120 (165)
T cd01868          50 KTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDL  120 (165)
T ss_pred             EEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccc
Confidence            3467889999864332223334445678777776654 456666666666554432  1334589999984

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>PF13479 AAA_24: AAA domain

Probab=96.54  E-value=0.015  Score=47.99  Aligned_cols=29  Identities=31%  Similarity=0.340  Sum_probs=23.4

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .++-+..|+||||++..+         .++++||+|..
T Consensus         6 ~lIyG~~G~GKTt~a~~~---------~k~l~id~E~g   34 (213)
T PF13479_consen    6 ILIYGPPGSGKTTLAASL---------PKPLFIDTENG   34 (213)
T ss_pred             EEEECCCCCCHHHHHHhC---------CCeEEEEeCCC
Confidence            334499999999988865         59999999965

>cd04125 RabA_like RabA-like subfamily

Probab=96.54  E-value=0.054  Score=43.46  Aligned_cols=68  Identities=16%  Similarity=0.077  Sum_probs=43.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|+++...........+..+|.++++.+.+. .++..+...++.+....  ...+.+|.|+.|.
T Consensus        47 ~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl  117 (188)
T cd04125          47 KIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDL  117 (188)
T ss_pred             EEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCC
Confidence            34678899998654322233445567899998887654 45666666555554421  2345689999984

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04122 Rab14 Rab14 subfamily

Probab=96.53  E-value=0.042  Score=43.03  Aligned_cols=68  Identities=13%  Similarity=0.077  Sum_probs=42.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+|+...........+..+|.+|++.+... .++..+...++.+....  ..++.+|.|+.+.
T Consensus        49 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl  119 (166)
T cd04122          49 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADL  119 (166)
T ss_pred             EEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccc
Confidence            35778999998643322223344557898888877665 45666666665554322  2245589999885

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.52  E-value=0.031  Score=48.08  Aligned_cols=40  Identities=18%  Similarity=0.290  Sum_probs=32.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ..+|.++ +..|+||||+...+...|.. . .++.+|+-|...
T Consensus       104 ~~~v~l~-G~pGsGKTTLl~~l~~~l~~-~-~~~~VI~gD~~t  143 (290)
T PRK10463        104 QLVLNLV-SSPGSGKTTLLTETLMRLKD-S-VPCAVIEGDQQT  143 (290)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhcc-C-CCEEEECCCcCc
Confidence            5788887 66899999999999998876 4 588899888643

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=96.52  E-value=0.01  Score=59.02  Aligned_cols=68  Identities=16%  Similarity=0.046  Sum_probs=53.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ..|-+-+||||+..+...-...++..+|.+|+|+.....-...+...++.+...+.+.+ +++|++|..
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~~~p~i-~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPV-LTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHCCCCEE-EEEECCccc
Confidence            45667899999866644445667778999999999887666677888888888888876 999999843

>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional

Probab=96.51  E-value=0.011  Score=56.22  Aligned_cols=41  Identities=17%  Similarity=0.237  Sum_probs=36.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++++|+|++ ..|+||||+...|...|.+ +|+||.+|-.|..
T Consensus         9 ~~~vi~ivG-~s~sGKTTlie~li~~L~~-~G~rVavIKh~~h   49 (597)
T PRK14491          9 SIPLLGFCA-YSGTGKTTLLEQLIPELNQ-RGLRLAVIKHAHH   49 (597)
T ss_pred             CccEEEEEc-CCCCCHHHHHHHHHHHHHh-CCceEEEEEcCCc
Confidence            468999985 5899999999999999999 9999999987654

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.50  E-value=0.0041  Score=48.23  Aligned_cols=37  Identities=35%  Similarity=0.277  Sum_probs=32.2

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ++.+..|+||||++..|+..+.. .|.+++++|.|...
T Consensus         3 ~i~G~~GsGKSTla~~L~~~l~~-~g~~~~~i~~d~~r   39 (149)
T cd02027           3 WLTGLSGSGKSTIARALEEKLFQ-RGRPVYVLDGDNVR   39 (149)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHH-cCCCEEEEcCHHHH
Confidence            44589999999999999999998 89999999877544

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.48  E-value=0.005  Score=52.74  Aligned_cols=39  Identities=23%  Similarity=0.337  Sum_probs=34.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVY   72 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~   72 (295)
                      -+.+..+..|+||||++.+++..++. . |.+|+++.++..
T Consensus        31 ~~~~i~g~~G~GKT~l~~~~~~~~~~-~~g~~vl~iS~E~~   70 (271)
T cd01122          31 ELIILTAGTGVGKTTFLREYALDLIT-QHGVRVGTISLEEP   70 (271)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHH-hcCceEEEEEcccC
Confidence            35556799999999999999999998 6 999999999753

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR01393 lepA GTP-binding protein LepA

Probab=96.47  E-value=0.013  Score=55.97  Aligned_cols=67  Identities=13%  Similarity=0.043  Sum_probs=44.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|.+.|+|||+...........+..||.++++.+.....-......+..+...+.++ .+|+|+.|.
T Consensus        68 ~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~~~ipi-IiViNKiDl  134 (595)
T TIGR01393        68 ETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLEI-IPVINKIDL  134 (595)
T ss_pred             CEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHHcCCCE-EEEEECcCC
Confidence            4588999999976553333445577899999999887643223333333333456665 499999994

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>cd04148 RGK RGK subfamily

Probab=96.47  E-value=0.084  Score=43.76  Aligned_cols=65  Identities=20%  Similarity=0.086  Sum_probs=42.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhc-cCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTL-QLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~-~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+++...  ......+. .+|.+++|...+. .++..+...+..+.+.    +.|+ .+|.|+.|.
T Consensus        48 ~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~pi-ilV~NK~Dl  118 (221)
T cd04148          48 EESTLVVIDHWEQEM--WTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPI-ILVGNKSDL  118 (221)
T ss_pred             EEEEEEEEeCCCcch--HHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEEChhc
Confidence            457789999986541  22222233 6899988877654 4666666666666542    3444 599999984

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=96.46  E-value=0.012  Score=45.84  Aligned_cols=93  Identities=12%  Similarity=0.074  Sum_probs=57.8

Q ss_pred             CCccEEEEcCCCCCCccc------hhhhhh--ccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQ------LTTTQT--LQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPH  209 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~------~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~  209 (295)
                      .+..+.++|+|+-.+...      .+...+  ...|.++.|+++..  ++.-..+..++.+.+.|.+ +++||+|.-...
T Consensus        45 ~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~--l~r~l~l~~ql~e~g~P~v-vvlN~~D~a~~~  121 (156)
T PF02421_consen   45 GDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATN--LERNLYLTLQLLELGIPVV-VVLNKMDEAERK  121 (156)
T ss_dssp             TTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGG--HHHHHHHHHHHHHTTSSEE-EEEETHHHHHHT
T ss_pred             cCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCC--HHHHHHHHHHHHHcCCCEE-EEEeCHHHHHHc
Confidence            458899999997444221      122222  36789999988876  4555667778888898886 999999842111


Q ss_pred             CCCCccccCCchhhHHHHHhCCcEEEeecCC
Q 022525          210 CSEPSFIFGKGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                             --....+.+.+.+|.+++......
T Consensus       122 -------g~~id~~~Ls~~Lg~pvi~~sa~~  145 (156)
T PF02421_consen  122 -------GIEIDAEKLSERLGVPVIPVSART  145 (156)
T ss_dssp             -------TEEE-HHHHHHHHTS-EEEEBTTT
T ss_pred             -------CCEECHHHHHHHhCCCEEEEEeCC
Confidence                   011237788888999887655543

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase

Probab=96.44  E-value=0.0071  Score=52.74  Aligned_cols=42  Identities=33%  Similarity=0.400  Sum_probs=37.8

Q ss_pred             CeEEEEeeCC-CCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGK-GGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~k-GGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+||.|.|-. ||+|||.++.-|+..|.+ +|++|.+|.-.+..
T Consensus        28 vPVIsVGNitvGGTGKTP~v~~La~~l~~-~G~~~~IlSRGYg~   70 (311)
T TIGR00682        28 VPVVIVGNLSVGGTGKTPVVVWLAELLKD-RGLRVGVLSRGYGS   70 (311)
T ss_pred             CCEEEEeccccCCcChHHHHHHHHHHHHH-CCCEEEEECCCCCC
Confidence            5899999988 999999999999999999 99999999766544

Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.

>PF13245 AAA_19: Part of AAA domain

Probab=96.44  E-value=0.008  Score=40.76  Aligned_cols=34  Identities=29%  Similarity=0.351  Sum_probs=28.5

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhC----CCeEEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKC----QLKVGLLD   68 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~----g~~VlliD   68 (295)
                      +.++.+-.|+|||++++++...+.. .    +.+|+++-
T Consensus        12 ~~vv~g~pGtGKT~~~~~~i~~l~~-~~~~~~~~vlv~a   49 (76)
T PF13245_consen   12 LFVVQGPPGTGKTTTLAARIAELLA-ARADPGKRVLVLA   49 (76)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHH-HhcCCCCeEEEEC
Confidence            4555789999999999999999886 5    88999983

>cd04112 Rab26 Rab26 subfamily

Probab=96.43  E-value=0.034  Score=44.86  Aligned_cols=66  Identities=14%  Similarity=0.107  Sum_probs=41.7

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+|++.+.+. .++..+...+..+.+.   +.++ .+|.|+.+.
T Consensus        49 ~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~pi-iiv~NK~Dl  118 (191)
T cd04112          49 KVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVI-MLLGNKADM  118 (191)
T ss_pred             EEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcE-EEEEEcccc
Confidence            4568899999753321223334556888888887654 3566666656555543   3444 589999985

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=96.42  E-value=0.014  Score=53.52  Aligned_cols=67  Identities=16%  Similarity=0.122  Sum_probs=43.4

Q ss_pred             CCccEEEEcCCCCCCcc--------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA--------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~--------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+..+.|+|||+.....        ......+..+|.+++|++....-........+++++.+.+++ +|+|+.+.
T Consensus        45 ~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~pii-lVvNK~D~  119 (429)
T TIGR03594        45 GGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKSGKPVI-LVANKIDG  119 (429)
T ss_pred             CCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCCEE-EEEECccC
Confidence            34568999998532110        112334567899999988876433344556667776676665 89999984

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=96.41  E-value=0.012  Score=57.11  Aligned_cols=67  Identities=16%  Similarity=0.181  Sum_probs=48.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|||+...........+..+|.+++|+..+......+...+..+...+.|++ +++|+.|.
T Consensus       293 ~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~~~iPiI-VViNKiDl  359 (742)
T CHL00189        293 ENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVPII-VAINKIDK  359 (742)
T ss_pred             CceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHhcCceEE-EEEECCCc
Confidence            35789999999643322233345668999999998776555566677777777787765 99999984

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=96.41  E-value=0.041  Score=50.47  Aligned_cols=66  Identities=12%  Similarity=0.031  Sum_probs=43.2

Q ss_pred             CccEEEEcCCCCCCcc-------c----hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDA-------Q----LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~-------~----~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +..++++|||+.....       .    .+...+..+|.+++|.+..........+.+..+.+.+.+++ +|+|+.|.
T Consensus       219 ~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~ii-iv~NK~Dl  295 (429)
T TIGR03594       219 GKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALV-IVVNKWDL  295 (429)
T ss_pred             CcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEE-EEEECccc
Confidence            3468999999532110       0    11234567999999988876544444556666666676665 99999984

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=96.39  E-value=0.047  Score=42.64  Aligned_cols=67  Identities=13%  Similarity=0.150  Sum_probs=41.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.++|+|+...........+..+|.++++...... ++......+..+.+    .+.|+ .+|+|+.+.
T Consensus        48 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~D~  119 (167)
T cd04160          48 GNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPL-LILANKQDL  119 (167)
T ss_pred             CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCE-EEEEEcccc
Confidence            457899999996433222333446678988888876543 34444444444332    34565 499999984

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.39  E-value=0.006  Score=51.61  Aligned_cols=40  Identities=25%  Similarity=0.429  Sum_probs=35.1

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP   74 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~   74 (295)
                      +|+| .+..|+||||++..|+..|.. .|.+|.+|+.|.-..
T Consensus         1 IIgI-tG~SGSGKTTv~~~l~~~l~~-~g~~v~vI~~D~yyr   40 (277)
T cd02029           1 VIAV-TGSSGAGTTTVKRAFEHIFAR-EGIHPAVVEGDSFHR   40 (277)
T ss_pred             CEEE-ECCCCCCHHHHHHHHHHHHHh-cCCceEEEecccccc
Confidence            4667 478899999999999999999 899999999997764

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed

Probab=96.38  E-value=0.0068  Score=53.17  Aligned_cols=42  Identities=33%  Similarity=0.432  Sum_probs=36.9

Q ss_pred             CeEEEEeeC-CCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASG-KGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~-kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+||+|.|- -||+|||+++..|+..|.+ +|++|.+|--.+..
T Consensus        49 ~pvIsVGNi~vGGtGKTP~v~~L~~~l~~-~g~~~~ilsRGYg~   91 (325)
T PRK00652         49 VPVIVVGNITVGGTGKTPVVIALAEQLQA-RGLKPGVVSRGYGG   91 (325)
T ss_pred             CCEEEEcCeeCCCCChHHHHHHHHHHHHH-CCCeEEEECCCCCC
Confidence            479999776 5999999999999999999 99999999777644

>PLN00023 GTP-binding protein; Provisional

Probab=96.38  E-value=0.28  Score=43.03  Aligned_cols=94  Identities=10%  Similarity=-0.033  Sum_probs=53.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC--------------CCeeeEEecc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ--------------VPILGLVENM  202 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~--------------~~~~~~ViN~  202 (295)
                      ..+.+-|.|+++.-....+...-...+|.+|+|...+. .++..+...++.+....              ...+.+|.|+
T Consensus        81 k~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK  160 (334)
T PLN00023         81 RDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNK  160 (334)
T ss_pred             ceEEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEEC
Confidence            45778999999653322232333557888888876544 56667766666665431              1235699999


Q ss_pred             ccCCCCCCCCCccccCCchhhHHHHHhCC
Q 022525          203 SCFICPHCSEPSFIFGKGGTHRTAAEMGL  231 (295)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  231 (295)
                      .|...............+..++++++.|.
T Consensus       161 ~DL~~~~~~r~~s~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        161 ADIAPKEGTRGSSGNLVDAARQWVEKQGL  189 (334)
T ss_pred             ccccccccccccccccHHHHHHHHHHcCC
Confidence            99632110000000123557777777763

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=96.37  E-value=0.032  Score=43.18  Aligned_cols=66  Identities=17%  Similarity=0.173  Sum_probs=42.9

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .+++.++|+|+...........+..+|.++++..+... ++..+...+..+.+    .+.++ .+|.|+.+.
T Consensus        42 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~pi-iiv~nK~D~  112 (158)
T cd00878          42 NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPL-LIFANKQDL  112 (158)
T ss_pred             CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcE-EEEeeccCC
Confidence            47799999997544223334455678999999888765 55555554444333    24444 488999984

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins

Probab=96.36  E-value=0.062  Score=46.37  Aligned_cols=166  Identities=17%  Similarity=0.230  Sum_probs=94.7

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+++|.+++.---+||-|++..|...+.+ +|.++..+-...++ -   +. ..  .+            .-++.++   
T Consensus       111 ~~~rv~~vGTDcavGK~tTal~L~~~l~~-~G~~a~fvaTGQTG-i---mi-a~--~G------------v~iDav~---  167 (301)
T PF07755_consen  111 KAKRVLTVGTDCAVGKMTTALELRRALRE-RGINAGFVATGQTG-I---MI-AG--YG------------VPIDAVP---  167 (301)
T ss_dssp             SSEEEEEEESSSSSSHHHHHHHHHHHHHH-TT--EEEEE-SHHH-H---HC-HS--EC--------------GGGSB---
T ss_pred             CCCEEEEEccCccccHHHHHHHHHHHHHH-cCCCceEEecCCce-E---EE-ec--CC------------eeccchh---
Confidence            47999999999999999999999999999 99999998655433 1   11 00  00            0011111   


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch---hhhhhc--cCceEEEeeCCCcc--------
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL---TTTQTL--QLSGALIVSTPQDV--------  176 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~---~~~~l~--~ad~viiv~~~~~~--------  176 (295)
                                 ..+..-.+..+..... ++.|+|||...+++....+   +...|.  .-|.+|+.-.|...        
T Consensus       168 -----------~DFvaGavE~~v~~~~-~~~d~ivVEGQgsL~hPay~gvsl~lL~Gs~Pd~lVL~H~p~r~~~~~~p~~  235 (301)
T PF07755_consen  168 -----------SDFVAGAVEALVPEAA-EEHDWIVVEGQGSLSHPAYSGVSLGLLHGSQPDALVLCHAPGRKHRDGFPHY  235 (301)
T ss_dssp             -----------GGGHHHHHHHHHHHHC-CC-SEEEEE--S-TTSTTTHHCHHHHHHHH--SEEEEEEETT-SC-TTSTTS
T ss_pred             -----------hhhHHHHHHHHHHhhC-cCCCEEEEeccccccCccccccchhhhccCCCCeEEEEecCCcccccCCCcC
Confidence                       2234556677666665 3669999999988764332   223333  34888888888332        


Q ss_pred             hHHHHHHHHHHHhcCC-----CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeec
Q 022525          177 ALIDARKGITMFSKVQ-----VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIP  238 (295)
Q Consensus       177 s~~~~~~~~~~l~~~~-----~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip  238 (295)
                      .+....+.++.++...     .+++|+-+|-....      .  .-.+...+++.+++|+|+.-.+.
T Consensus       236 ~ip~l~~~I~l~e~la~~~~~~~VvgIslNt~~l~------~--~e~~~~~~~~~~e~glPv~Dp~r  294 (301)
T PF07755_consen  236 PIPPLEEEIELIEALAGTKPPAKVVGISLNTSGLS------E--EEAKAAIERIEEELGLPVTDPLR  294 (301)
T ss_dssp             C---HHHHHHHHHHCCCGC---EEEEEECC-TTS-------H--HHHHHHHHHHHHHH-S-EE-HHH
T ss_pred             CCCCHHHHHHHHHHhhccCCCccEEEEEEECCCCC------H--HHHHHHHHHHHHHHCCCeeeccc
Confidence            3455566666666543     23788888875521      0  11124577888889988875444

The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=96.36  E-value=0.021  Score=53.06  Aligned_cols=67  Identities=15%  Similarity=0.078  Sum_probs=42.8

Q ss_pred             CCccEEEEcCCCCCCcc--------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA--------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~--------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+..+.|+|||+-....        ......+..||.+|+|.+........-....+++.+.+.+++ +|+|+.+.
T Consensus        84 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~~~pii-lV~NK~Dl  158 (472)
T PRK03003         84 NGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRRSGKPVI-LAANKVDD  158 (472)
T ss_pred             CCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECccC
Confidence            44568899998532110        012234557999999998876433333456666666666665 99999984

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=96.35  E-value=0.031  Score=43.54  Aligned_cols=67  Identities=10%  Similarity=0.112  Sum_probs=42.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ....+.+.|+|+...........+..+|.++++...+. .++..+...++.+...  +.+. .+|.|+.+.
T Consensus        50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  119 (164)
T cd04101          50 NTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMPG-VLVGNKMDL  119 (164)
T ss_pred             CEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEECccc
Confidence            45778999998533222333445567899998887754 3455555555555443  3444 589999984

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=96.33  E-value=0.024  Score=44.89  Aligned_cols=67  Identities=16%  Similarity=0.058  Sum_probs=43.7

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      .+.+.|.|+|+...........+..+|.+++|.+... .++......+..+.+.   ...++.+|.|+.+.
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl  118 (170)
T cd04108          48 PFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDL  118 (170)
T ss_pred             EEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhc
Confidence            4668899999644322334445668899999988744 4666666666554332   22345699999984

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.33  E-value=0.0066  Score=51.00  Aligned_cols=40  Identities=18%  Similarity=0.245  Sum_probs=34.5

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~   73 (295)
                      -+.+.++..|+|||+++.+++..++. . |.+|+.+.++...
T Consensus        14 ~l~lI~G~~G~GKT~~~~~~~~~~~~-~~g~~vly~s~E~~~   54 (242)
T cd00984          14 DLIIIAARPSMGKTAFALNIAENIAK-KQGKPVLFFSLEMSK   54 (242)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHH-hCCCceEEEeCCCCH
Confidence            34555799999999999999999998 6 9999999988744

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.31  E-value=0.016  Score=45.92  Aligned_cols=41  Identities=27%  Similarity=0.351  Sum_probs=35.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +++++|+ +..|+||||+...|...|.. +|.+|..|-.+...
T Consensus         6 ~~ii~iv-G~sgsGKTTLi~~li~~l~~-~g~~vg~Ik~~~~~   46 (173)
T PRK10751          6 IPLLAIA-AWSGTGKTTLLKKLIPALCA-RGIRPGLIKHTHHD   46 (173)
T ss_pred             ceEEEEE-CCCCChHHHHHHHHHHHHhh-cCCeEEEEEEcCCC
Confidence            5677776 67899999999999999999 99999999876543

>PRK04328 hypothetical protein; Provisional

Probab=96.29  E-value=0.011  Score=50.04  Aligned_cols=41  Identities=17%  Similarity=0.101  Sum_probs=34.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.++.| .+..|+|||+++.++++..++ .|.++++|+++...
T Consensus        23 gs~ili-~G~pGsGKT~l~~~fl~~~~~-~ge~~lyis~ee~~   63 (249)
T PRK04328         23 RNVVLL-SGGPGTGKSIFSQQFLWNGLQ-MGEPGVYVALEEHP   63 (249)
T ss_pred             CcEEEE-EcCCCCCHHHHHHHHHHHHHh-cCCcEEEEEeeCCH
Confidence            455555 467779999999999999888 89999999998644

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.28  E-value=0.0058  Score=51.73  Aligned_cols=36  Identities=36%  Similarity=0.481  Sum_probs=31.9

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .++.+-.|+||||+|..|+..+.. .|.+|.++|.|.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~-~~~~v~~i~~D~   37 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSE-KNIDVIILGTDL   37 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH-cCCceEEEccHH
Confidence            355689999999999999999999 899999998774

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=96.25  E-value=0.0097  Score=56.63  Aligned_cols=67  Identities=12%  Similarity=0.116  Sum_probs=47.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+.-.........+..+|.+++|++.+......+...+..+...+.+.+.+|+|+.|.
T Consensus        49 ~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dl  115 (581)
T TIGR00475        49 DYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADR  115 (581)
T ss_pred             CEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCCC
Confidence            3678999999643221223444567899999999887555566666677777788855699999984

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>cd01898 Obg Obg subfamily

Probab=96.24  E-value=0.019  Score=44.98  Aligned_cols=65  Identities=17%  Similarity=0.010  Sum_probs=40.2

Q ss_pred             ccEEEEcCCCCCCcc----ch---hhhhhccCceEEEeeCCCcc--hHHHHHHHHHHHhcC-----CCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDA----QL---TTTQTLQLSGALIVSTPQDV--ALIDARKGITMFSKV-----QVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~----~~---~~~~l~~ad~viiv~~~~~~--s~~~~~~~~~~l~~~-----~~~~~~~ViN~~~~  205 (295)
                      ..+.++|+|+-....    .+   ....+..+|.++++......  ++......++.+...     +.++ .+|+|+.+.
T Consensus        48 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~-ivv~NK~Dl  126 (170)
T cd01898          48 RSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPR-IVVLNKIDL  126 (170)
T ss_pred             CeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCcccccccc-EEEEEchhc
Confidence            378999999632110    01   11223458999999888764  556666555555432     3444 489999984

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>cd04116 Rab9 Rab9 subfamily

Probab=96.21  E-value=0.076  Score=41.67  Aligned_cols=67  Identities=10%  Similarity=-0.000  Sum_probs=39.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+|+......+....+..+|.++++...+ ..++..+...+..+..       .+.|+ .+|.|+.+.
T Consensus        52 ~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  126 (170)
T cd04116          52 HFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPF-VVLGNKNDI  126 (170)
T ss_pred             eEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcE-EEEEECccc
Confidence            4467889999864332223333455788888876654 3456665554443322       23444 489999984

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=96.20  E-value=0.012  Score=46.01  Aligned_cols=67  Identities=16%  Similarity=0.141  Sum_probs=46.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+++.++|||+...........+..+|.++++..++..........+..+...+.+++ +|+|+.+.
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~~~p~i-vv~NK~Dl  114 (168)
T cd01887          48 KIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQTIEAIKLAKAANVPFI-VALNKIDK  114 (168)
T ss_pred             CcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEE-EEEEceec
Confidence            57899999999643321222334567899999998876444455555666666777764 89999984

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.20  E-value=0.0079  Score=48.59  Aligned_cols=41  Identities=29%  Similarity=0.333  Sum_probs=30.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHh---------CCCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASK---------CQLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~---------~g~~VlliD~D~~~   73 (295)
                      -+.++.+.+|+||||++.+++..++.-         .+.+|++|+++...
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~   82 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE   82 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH
Confidence            366667999999999999999999961         35799999999764

>COG3367 Uncharacterized conserved protein [Function unknown]

Probab=96.19  E-value=0.17  Score=43.64  Aligned_cols=172  Identities=19%  Similarity=0.201  Sum_probs=104.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      ..++|.+.+..--|||=|++..|...+.. .|+++..+-.++.+ -+   . .+  .++            -++-+    
T Consensus       147 ~a~~V~vvGTd~~vGKrTTa~~L~~~~~e-~G~~a~fvaTgqtg-il---~-~~--~gv------------vvdav----  202 (339)
T COG3367         147 DAKVVLVVGTDCAVGKRTTALELREAARE-EGIKAGFVATGQTG-IL---I-AD--DGV------------VVDAV----  202 (339)
T ss_pred             CCcEEEEeccccccchhHHHHHHHHHHHH-hCCccceEecCcee-eE---E-ec--Cce------------Eecch----
Confidence            36899999999999999999999999999 99999988666443 11   1 00  000            00000    


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc----hhhhhhccCceEEEeeCCCcchHH------
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ----LTTTQTLQLSGALIVSTPQDVALI------  179 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~----~~~~~l~~ad~viiv~~~~~~s~~------  179 (295)
                                ...+.+..+..+.-.+...++|+|+|...+++....    +.+..-...|.+++.-.|+...+.      
T Consensus       203 ----------~~DfaAGave~~v~~~~e~~~Dii~VEGQgsl~HP~y~vtl~il~gs~PDavvL~H~P~r~~~~g~P~~i  272 (339)
T COG3367         203 ----------VMDFAAGAVESAVYEAEEKNPDIIFVEGQGSLTHPAYGVTLGILHGSAPDAVVLCHDPNRKYRDGFPEPI  272 (339)
T ss_pred             ----------hHHHHHHHHHHHHHHhhhcCCCEEEEeccccccCCCcccchhhhcCCCCCeEEEEecCCCccccCCCCcC
Confidence                      011223344444444442499999999988765433    222222345889998888775433      


Q ss_pred             -HHHHHHHHHhc-CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccc
Q 022525          180 -DARKGITMFSK-VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDI  243 (295)
Q Consensus       180 -~~~~~~~~l~~-~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~  243 (295)
                       .....+...+. .+.+++++.+|--+..      .  ...++..+++..++|+++...+.+.+++
T Consensus       273 p~leevi~l~e~l~~a~Vvgi~lNtr~~d------E--~~are~~a~l~~efglP~~Dp~~~~~d~  330 (339)
T COG3367         273 PPLEEVIALYELLSNAKVVGIALNTRNLD------E--EEARELCAKLEAEFGLPVTDPLRFGEDV  330 (339)
T ss_pred             CCHHHHHHHHHHccCCcEEEEEecccccC------h--HHHHHHHHHHhhccCCccccccccchHH
Confidence             22333333333 2478889999864421      1  1113446666677787777666665553

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.18  E-value=0.013  Score=48.14  Aligned_cols=40  Identities=25%  Similarity=0.390  Sum_probs=31.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+.+|+| ++..|+||||++..|+..+   .+..+.+++.|...
T Consensus         5 ~~~iI~I-~G~sGsGKTTl~~~l~~~l---~~~~~~~i~~D~~~   44 (209)
T PRK05480          5 KPIIIGI-AGGSGSGKTTVASTIYEEL---GDESIAVIPQDSYY   44 (209)
T ss_pred             CCEEEEE-ECCCCCCHHHHHHHHHHHh---CCCceEEEeCCccc
Confidence            3567777 5899999999999999887   34578889888643

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.16  E-value=0.015  Score=50.82  Aligned_cols=41  Identities=22%  Similarity=0.153  Sum_probs=31.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~~   72 (295)
                      -.|.-..+..|+|||+++..++...+..     .+.+|+.||....
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~  141 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGT  141 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCC
Confidence            4566667999999999999999765520     3579999998854

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.12  E-value=0.017  Score=56.17  Aligned_cols=41  Identities=17%  Similarity=0.148  Sum_probs=34.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      -.|....+..|+||||++.+++...+. .|.+|++||....-
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~-~G~~v~yId~E~t~  100 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQA-AGGVAAFIDAEHAL  100 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEECCccch
Confidence            345555689999999999999999888 99999999987654

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=96.12  E-value=0.066  Score=42.76  Aligned_cols=38  Identities=18%  Similarity=0.173  Sum_probs=30.0

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |.+.++==|+||||+-.+|.. ... .|.++.+|-.|...
T Consensus         2 v~ii~GfLGsGKTTli~~ll~-~~~-~~~~~~vI~ne~g~   39 (178)
T PF02492_consen    2 VIIITGFLGSGKTTLINHLLK-RNR-QGERVAVIVNEFGE   39 (178)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH-HHT-TTS-EEEEECSTTS
T ss_pred             EEEEEcCCCCCHHHHHHHHHH-Hhc-CCceeEEEEccccc
Confidence            345567789999999999998 555 89999999888764

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>cd04154 Arl2 Arl2 subfamily

Probab=96.11  E-value=0.1  Score=41.21  Aligned_cols=66  Identities=9%  Similarity=0.049  Sum_probs=40.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .+.+.++|+|+...........+..+|.+++|...... ++......+..+.+    .+.++ .+|.|+.|.
T Consensus        57 ~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-iiv~nK~Dl  127 (173)
T cd04154          57 GYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATL-LILANKQDL  127 (173)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCE-EEEEECccc
Confidence            46789999996432112223345578988888776654 45555444443322    34454 499999984

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.11  E-value=0.0079  Score=52.98  Aligned_cols=40  Identities=30%  Similarity=0.311  Sum_probs=34.2

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP   74 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~   74 (295)
                      .+..+-.|+||||++..|+..|....|.+|.++|.|-.-+
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i~   41 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDIIP   41 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEccccccc
Confidence            4566889999999999999999832899999999997654

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=96.10  E-value=0.064  Score=49.31  Aligned_cols=67  Identities=10%  Similarity=-0.026  Sum_probs=44.9

Q ss_pred             CCccEEEEcCCCCCCcc-----------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA-----------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-----------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ++.++.++|||+.....           ..+...+..+|.+++|.+...............+.+.+.+.+ +|+|+.|.
T Consensus       219 ~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~i-vv~NK~Dl  296 (435)
T PRK00093        219 DGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLRIAGLALEAGRALV-IVVNKWDL  296 (435)
T ss_pred             CCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcEE-EEEECccC
Confidence            45678999999632110           012334567899999998877544555566666666676665 99999984

>PLN03118 Rab family protein; Provisional

Probab=96.09  E-value=0.11  Score=42.65  Aligned_cols=67  Identities=13%  Similarity=0.009  Sum_probs=39.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHH-HHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGIT-MFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~-~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+|++.+.+. .++..+..... .+..    .+.++ .+|.|+.+.
T Consensus        60 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~-ilv~NK~Dl  132 (211)
T PLN03118         60 KRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVK-MLVGNKVDR  132 (211)
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            34678999999754432333444557898888877654 34555544322 2221    22344 488999984

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=96.09  E-value=0.099  Score=41.14  Aligned_cols=67  Identities=12%  Similarity=0.074  Sum_probs=41.7

Q ss_pred             CCccEEEEcCCCCCCcc-chhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA-QLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+++..... ......+..+|.++++...+. .++..+...++.+...    +.|+ .+|.|+.+.
T Consensus        49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-iiv~nK~Dl  121 (170)
T cd04115          49 ERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPR-ILVGNKCDL  121 (170)
T ss_pred             eEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            45788999998643211 112223446788888877754 4566666666555542    3455 499999984

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.07  E-value=0.0089  Score=47.82  Aligned_cols=38  Identities=21%  Similarity=0.219  Sum_probs=29.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++-+.++| ..|+|||.+|..+|..+.+ .|++|+.+++.
T Consensus        47 ~~~l~l~G-~~G~GKThLa~ai~~~~~~-~g~~v~f~~~~   84 (178)
T PF01695_consen   47 GENLILYG-PPGTGKTHLAVAIANEAIR-KGYSVLFITAS   84 (178)
T ss_dssp             --EEEEEE-STTSSHHHHHHHHHHHHHH-TT--EEEEEHH
T ss_pred             CeEEEEEh-hHhHHHHHHHHHHHHHhcc-CCcceeEeecC
Confidence            35566654 6899999999999999999 99999999654

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>cd01878 HflX HflX subfamily

Probab=96.06  E-value=0.041  Score=44.80  Aligned_cols=66  Identities=17%  Similarity=0.113  Sum_probs=36.6

Q ss_pred             CccEEEEcCCCCCCcc-c-----h--hhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDA-Q-----L--TTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~-~-----~--~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      .+.++|+|+|+..... .     +  .......+|.++++...... +........+.+...   +.+ +.+|+|+.|.
T Consensus        88 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~-viiV~NK~Dl  165 (204)
T cd01878          88 GREVLLTDTVGFIRDLPHQLVEAFRSTLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIP-MILVLNKIDL  165 (204)
T ss_pred             CceEEEeCCCccccCCCHHHHHHHHHHHHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCC-EEEEEEcccc
Confidence            3478999998642210 0     0  11123468988888876543 333333333444332   334 4599999984

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.05  E-value=0.14  Score=40.59  Aligned_cols=32  Identities=25%  Similarity=0.222  Sum_probs=24.6

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .++.+..|+|||++|..++..    .|.++++++..
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~----~~~~~~y~at~   33 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE----LGGPVTYIATA   33 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh----cCCCeEEEEcc
Confidence            355688999999999988753    57789888443

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.05  E-value=0.016  Score=46.08  Aligned_cols=39  Identities=36%  Similarity=0.297  Sum_probs=32.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|.| .+-.|+||||++..|+..|.. .+..+.++|.|.
T Consensus         7 ~~~I~i-~G~~GsGKst~a~~l~~~l~~-~~~~~~~~~~d~   45 (176)
T PRK05541          7 GYVIWI-TGLAGSGKTTIAKALYERLKL-KYSNVIYLDGDE   45 (176)
T ss_pred             CCEEEE-EcCCCCCHHHHHHHHHHHHHH-cCCcEEEEecHH
Confidence            466666 588899999999999999998 888888887553

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=96.05  E-value=0.013  Score=49.90  Aligned_cols=41  Identities=22%  Similarity=0.293  Sum_probs=34.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~   73 (295)
                      .-+.+.++..|+|||+++.++|..++. . |.+|+++.++...
T Consensus        19 g~L~vi~a~pg~GKT~~~l~ia~~~a~-~~~~~vly~SlEm~~   60 (259)
T PF03796_consen   19 GELTVIAARPGVGKTAFALQIALNAAL-NGGYPVLYFSLEMSE   60 (259)
T ss_dssp             T-EEEEEESTTSSHHHHHHHHHHHHHH-TTSSEEEEEESSS-H
T ss_pred             CcEEEEEecccCCchHHHHHHHHHHHH-hcCCeEEEEcCCCCH
Confidence            345566799999999999999999999 6 6999999988654

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.04  E-value=0.012  Score=51.45  Aligned_cols=39  Identities=23%  Similarity=0.306  Sum_probs=33.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++++-|+ +..|+||||++.+++...++ .|.+|++||+..
T Consensus        55 G~iteI~-Gp~GsGKTtLal~~~~~~~~-~g~~~vyId~E~   93 (325)
T cd00983          55 GRIIEIY-GPESSGKTTLALHAIAEAQK-LGGTVAFIDAEH   93 (325)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCCEEEECccc
Confidence            3555554 68999999999999999999 999999999864

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.03  E-value=0.016  Score=46.59  Aligned_cols=40  Identities=40%  Similarity=0.379  Sum_probs=33.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|.+. +..|+||||++..|+..+.. .|..++++|.|.-
T Consensus        18 ~~~i~i~-G~~GsGKstla~~l~~~l~~-~~~~~~~l~~d~~   57 (184)
T TIGR00455        18 GVVIWLT-GLSGSGKSTIANALEKKLES-KGYRVYVLDGDNV   57 (184)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCcEEEECChHH
Confidence            5666664 77799999999999999988 8988999987753

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PHA00729 NTP-binding motif containing protein

Probab=96.02  E-value=0.015  Score=48.05  Aligned_cols=26  Identities=31%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..|.|+ +..|+||||+|..||..+..
T Consensus        18 ~nIlIt-G~pGvGKT~LA~aLa~~l~~   43 (226)
T PHA00729         18 VSAVIF-GKQGSGKTTYALKVARDVFW   43 (226)
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHHHHHh
Confidence            345554 67899999999999998763

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=96.01  E-value=0.012  Score=51.06  Aligned_cols=136  Identities=15%  Similarity=0.092  Sum_probs=79.4

Q ss_pred             EEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCch
Q 022525          142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGG  221 (295)
Q Consensus       142 ~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~  221 (295)
                      |-=+|||+..+-.--.+......|..|+|+......+..+.+.+-..++.|++-+.+.+|+++.....   ....+-.-+
T Consensus       119 YaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQTrEHlLLArQVGV~~ivvfiNKvD~V~d~---e~leLVEmE  195 (449)
T KOG0460|consen  119 YAHTDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQTREHLLLARQVGVKHIVVFINKVDLVDDP---EMLELVEME  195 (449)
T ss_pred             cccCCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcchHHHHHHHHHcCCceEEEEEecccccCCH---HHHHHHHHH
Confidence            44579997665211123334457999999999999999999999999999999999999999843111   111111123


Q ss_pred             hhHHHHHhCCcEE--EeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Q 022525          222 THRTAAEMGLKVI--GEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKEQEHPES  289 (295)
Q Consensus       222 ~~~~~~~~g~~~~--~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  289 (295)
                      +++++..+|.+=.  ++|.-+..   +.-+|+.     | ....+++.+|.+.+-+.+-...++-++|++
T Consensus       196 ~RElLse~gf~Gd~~PvI~GSAL---~ALeg~~-----p-eig~~aI~kLldavDsyip~P~R~~~~pFl  256 (449)
T KOG0460|consen  196 IRELLSEFGFDGDNTPVIRGSAL---CALEGRQ-----P-EIGLEAIEKLLDAVDSYIPTPERDLDKPFL  256 (449)
T ss_pred             HHHHHHHcCCCCCCCCeeecchh---hhhcCCC-----c-cccHHHHHHHHHHHhccCCCcccccCCCce
Confidence            6677777775422  23322221   1223321     1 123455666666665555444444444544

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=95.98  E-value=0.013  Score=49.75  Aligned_cols=35  Identities=23%  Similarity=0.407  Sum_probs=30.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +-+.+ .++.|||||.+++.+|..+.+ .|.+|+++.
T Consensus       106 ~nl~l-~G~~G~GKThLa~Ai~~~l~~-~g~sv~f~~  140 (254)
T COG1484         106 ENLVL-LGPPGVGKTHLAIAIGNELLK-AGISVLFIT  140 (254)
T ss_pred             CcEEE-ECCCCCcHHHHHHHHHHHHHH-cCCeEEEEE
Confidence            44555 499999999999999999998 999999993

>cd03113 CTGs CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain

Probab=95.97  E-value=0.32  Score=40.51  Aligned_cols=186  Identities=14%  Similarity=0.086  Sum_probs=97.6

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcc--------------ccccCcccccccCCce
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPE--------------VTKDMKMVPIENYGVK  103 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~--------------~~~~~~~~~~~~~~~~  103 (295)
                      +--.|.||-.+|+.++..|.. +|.+|..+-+||-- +...-.-.+-+++              +....+..........
T Consensus         8 gv~s~lgkgi~~as~g~ll~~-~g~~v~~~K~DpYl-Nvd~GtmsP~~HGEvfVt~DG~E~DlDlG~YERfl~~~l~~~~   85 (255)
T cd03113           8 GVVSSLGKGITAASLGRLLKA-RGLKVTAQKLDPYL-NVDPGTMSPYQHGEVFVTDDGAETDLDLGHYERFLDTNLSRDN   85 (255)
T ss_pred             CcccCcchHHHHHHHHHHHHH-CCCeEEEEeecccc-cCCCCCCCCccceeEEEccCCCcccccccchhhhcCCCCcCcc
Confidence            345678999999999999999 99999999999854 2111100000100              0000111110000000


Q ss_pred             eeccc-------------cccCCCCCCccCCchHHHHHHHHHHhcc-CCCccEEEEcCCCCCCccch-----hhhhh---
Q 022525          104 CMSMG-------------FLVPSSSPVVWRGPMVMSALRKMSREVD-WGNLDILVIDMPPGTGDAQL-----TTTQT---  161 (295)
Q Consensus       104 ~~~~~-------------~~~~~~~~~~~~~~~~~~~l~~~~~~l~-~~~yD~iiiD~~~~~~~~~~-----~~~~l---  161 (295)
                      .+..|             .+.....   .--+...+.+++.+..+. ...+|++|+..++..++-.-     ++..+   
T Consensus        86 niTtGkiy~~vi~kER~G~ylG~TV---QviPHit~eIk~~i~~~~~~~~~dv~i~EiGGTvGDiEs~pf~EAirq~~~~  162 (255)
T cd03113          86 NITTGKIYSSVIEKERRGDYLGKTV---QVIPHITDEIKERIRRVAEKSGADVVIVEIGGTVGDIESLPFLEAIRQMKLE  162 (255)
T ss_pred             CcChHHHHHHHHHHhhccCccCceE---EECcCccHHHHHHHHHhhccCCCCEEEEEeCCccccccccHHHHHHHHHHHH
Confidence            00111             0000000   001123456666666554 26899999999987774311     00000   


Q ss_pred             ------ccCceEEEeeC--CCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcE
Q 022525          162 ------LQLSGALIVST--PQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       162 ------~~ad~viiv~~--~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  233 (295)
                            ......++|..  ....--..++..++.++..|+++.++|+|.-++           ......+.+..-.+++.
T Consensus       163 ~g~~n~~~ihvt~vp~~~~~gE~KTKPtQhSVeaLRs~GIqPDgIVcRse~p-----------L~e~~keKIAlFcnVpv  231 (255)
T cd03113         163 LGRENVLFIHVTLVPYLKAAGELKTKPTQHSVKELRSIGIQPDILVCRSEKP-----------LPPEIREKIALFCDVPP  231 (255)
T ss_pred             hCcCcEEEEEEeeeeeecCCCccccCchHHHHHHHHhCCCCCCEEEEeCCCC-----------CchHHHHHHHHhcCCCH
Confidence                  01122233322  244445567788999999999999999997221           11233555555557776


Q ss_pred             EEeecC
Q 022525          234 IGEIPI  239 (295)
Q Consensus       234 ~~~Ip~  239 (295)
                      .++|+.
T Consensus       232 e~VI~~  237 (255)
T cd03113         232 EAVISA  237 (255)
T ss_pred             HHeeec
Confidence            655553

The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent ammonia to the acceptor substrate at the synthetase domain to form an aminated product. Glutaminase domains have evolved from the same ancestor, whereas the synthetase domains are evolutionarily unrelated and have different functions. This protein family is classified based on the N-terminal synthetase domain.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.96  E-value=0.01  Score=48.09  Aligned_cols=38  Identities=32%  Similarity=0.438  Sum_probs=30.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCe----EEEEEeCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLK----VGLLDADVY   72 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~----VlliD~D~~   72 (295)
                      +|+| ++-.|+||||+|..|+..|.+ .|..    +..+..|..
T Consensus         1 IIgI-~G~sgSGKTTla~~L~~~L~~-~~~~~~~~~~~~~~d~~   42 (194)
T PF00485_consen    1 IIGI-AGPSGSGKTTLAKRLAQILNK-RGIPAMEMDIILSLDDF   42 (194)
T ss_dssp             EEEE-EESTTSSHHHHHHHHHHHHTT-CTTTCCCSEEEEEGGGG
T ss_pred             CEEE-ECCCCCCHHHHHHHHHHHhCc-cCcCccceeEEEeeccc
Confidence            4566 588999999999999999998 8876    666666643

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK06526 transposase; Provisional

Probab=95.95  E-value=0.0052  Score=52.09  Aligned_cols=35  Identities=23%  Similarity=0.331  Sum_probs=29.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      -+.+ .+..|+|||+++.+++..+.+ .|++|+.+.+
T Consensus       100 nlll-~Gp~GtGKThLa~al~~~a~~-~g~~v~f~t~  134 (254)
T PRK06526        100 NVVF-LGPPGTGKTHLAIGLGIRACQ-AGHRVLFATA  134 (254)
T ss_pred             eEEE-EeCCCCchHHHHHHHHHHHHH-CCCchhhhhH
Confidence            3444 478899999999999999999 9999987533

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=95.95  E-value=0.1  Score=41.77  Aligned_cols=68  Identities=18%  Similarity=0.134  Sum_probs=42.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+..............+|.+|++.+.+. .++......+..+.+.   ....+.+|.|+.+.
T Consensus        59 ~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl  130 (182)
T PTZ00133         59 KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDL  130 (182)
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCC
Confidence            45779999999643322233344567899999988754 4566665555444221   12334589999984

>cd01862 Rab7 Rab7 subfamily

Probab=95.95  E-value=0.095  Score=41.03  Aligned_cols=66  Identities=9%  Similarity=-0.015  Sum_probs=37.4

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc-------CCCCeeeEEeccccCC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK-------VQVPILGLVENMSCFI  206 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~~  206 (295)
                      +-+.++|+|+...........+..+|.+|++..... .++.......+.+..       .+.++ .+|+|+.+..
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~  122 (172)
T cd01862          49 VTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPF-VVLGNKIDLE  122 (172)
T ss_pred             EEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceE-EEEEECcccc
Confidence            446689998643322233344556898888876653 344444433332221       13455 4899999853

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>PRK05439 pantothenate kinase; Provisional

Probab=95.94  E-value=0.019  Score=49.92  Aligned_cols=41  Identities=37%  Similarity=0.393  Sum_probs=34.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC--CCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC--QLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~--g~~VlliD~D~~~   73 (295)
                      +.+|+| ++..|+||||+|..|+..|.+ .  |.+|.+|..|-..
T Consensus        86 ~~iIgI-aG~~gsGKSTla~~L~~~l~~-~~~~~~v~vi~~DdFy  128 (311)
T PRK05439         86 PFIIGI-AGSVAVGKSTTARLLQALLSR-WPEHPKVELVTTDGFL  128 (311)
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHHHHh-hCCCCceEEEeccccc
Confidence            467777 588999999999999999986 4  6789999999654

>PLN03108 Rab family protein; Provisional

Probab=95.91  E-value=0.31  Score=39.93  Aligned_cols=65  Identities=14%  Similarity=0.099  Sum_probs=38.0

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      +.+-|+|+++...........+..+|.++++...... ++..+...+..+..   ...++ .+|.|+.+.
T Consensus        55 i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~pi-iiv~nK~Dl  123 (210)
T PLN03108         55 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTI-MLIGNKCDL  123 (210)
T ss_pred             EEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcE-EEEEECccC
Confidence            4567889986443222333445568888888776543 45544444443332   23444 489999884

>cd04128 Spg1 Spg1p

Probab=95.88  E-value=0.15  Score=40.85  Aligned_cols=67  Identities=7%  Similarity=-0.044  Sum_probs=41.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+++.-.........+..+|.++++.+.+. .++..+...++.+.+.  ...++ +|.|+.|.
T Consensus        47 ~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~pi-lVgnK~Dl  116 (182)
T cd04128          47 TEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIPI-LVGTKYDL  116 (182)
T ss_pred             EEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEE-EEEEchhc
Confidence            34778899998643322222233457888888777544 4677766666666542  22233 78999985

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.88  E-value=0.12  Score=40.21  Aligned_cols=68  Identities=9%  Similarity=0.062  Sum_probs=41.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC-------CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV-------QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~-------~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+.-.........+..+|.+|++.+.+.. ++......+..+.+.       ....+.+|.|+.+.
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  122 (168)
T cd04119          47 KEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDL  122 (168)
T ss_pred             eEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhc
Confidence            567889999996432222223334578999999877643 455555555544432       12345699999984

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd01863 Rab18 Rab18 subfamily

Probab=95.88  E-value=0.19  Score=38.85  Aligned_cols=67  Identities=12%  Similarity=0.048  Sum_probs=41.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|+|+...........+..+|.++++.+... .++......+..+.+    .+.++ .+|.|+.+.
T Consensus        47 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~-~iv~nK~D~  118 (161)
T cd01863          47 KKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVK-MLVGNKIDK  118 (161)
T ss_pred             EEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcE-EEEEECCcc
Confidence            45778999999743322233344557899888887664 345555554444433    23444 489999884

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>cd04155 Arl3 Arl3 subfamily

Probab=95.86  E-value=0.16  Score=39.86  Aligned_cols=67  Identities=13%  Similarity=0.058  Sum_probs=37.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHh----cCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFS----KVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~----~~~~~~~~~ViN~~~~  205 (295)
                      ..+++.++|+|+...........+..+|.++++.+... .++......+..+.    ..+.++ .+++|+.+.
T Consensus        56 ~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK~D~  127 (173)
T cd04155          56 DGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPV-LVFANKQDL  127 (173)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCE-EEEEECCCC
Confidence            45678899998643211122233456788888876654 23444444433332    234555 488899884

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.84  E-value=0.054  Score=42.05  Aligned_cols=91  Identities=13%  Similarity=0.041  Sum_probs=55.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcCC--CCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKVQ--VPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+-|.|+++..............+|.++++.+.+ ..++..+...+..+....  ..++.+|.|+.+...      .
T Consensus        46 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~------~  119 (162)
T PF00071_consen   46 KPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSD------E  119 (162)
T ss_dssp             EEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGG------G
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceeeeccccccc------c
Confidence            5678999999854332223334455788888886544 456777777776665432  345668889988432      1


Q ss_pred             cccCCchhhHHHHHhCCcEE
Q 022525          215 FIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ........+++++.++.++.
T Consensus       120 ~~v~~~~~~~~~~~~~~~~~  139 (162)
T PF00071_consen  120 REVSVEEAQEFAKELGVPYF  139 (162)
T ss_dssp             SSSCHHHHHHHHHHTTSEEE
T ss_pred             ccchhhHHHHHHHHhCCEEE
Confidence            12222346667777775544

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated

Probab=95.84  E-value=0.055  Score=42.94  Aligned_cols=41  Identities=12%  Similarity=-0.110  Sum_probs=32.4

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+.++.+...  .-.|=||||.|..+|...+- +|+||++|-+=
T Consensus        18 ~~~~Gli~VY--tGdGKGKTTAAlGlalRAaG-~G~rV~iiQFl   58 (178)
T PRK07414         18 YTIEGLVQVF--TSSQRNFFTSVMAQALRIAG-QGTPVLIVQFL   58 (178)
T ss_pred             CCCCCEEEEE--eCCCCCchHHHHHHHHHHhc-CCCEEEEEEEe
Confidence            3444555555  45688999999999999999 99999999654

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=95.80  E-value=0.015  Score=43.00  Aligned_cols=30  Identities=43%  Similarity=0.424  Sum_probs=21.9

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++.+..|+||||+|..||..+    |..++  ++|-
T Consensus         3 ~I~G~~gsGKST~a~~La~~~----~~~~i--~~d~   32 (121)
T PF13207_consen    3 IISGPPGSGKSTLAKELAERL----GFPVI--SMDD   32 (121)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH----TCEEE--EEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH----CCeEE--Eecc
Confidence            446899999999999887655    55554  5553

...

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=95.79  E-value=0.12  Score=42.68  Aligned_cols=67  Identities=13%  Similarity=0.084  Sum_probs=40.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+++.-....+.......+|.+|++...+. .++..+...++.+.+  .+.++ .+|.|+.+.
T Consensus        60 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~pi-ilvgNK~Dl  129 (219)
T PLN03071         60 GKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPI-VLCGNKVDV  129 (219)
T ss_pred             eEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCcE-EEEEEchhh
Confidence            34678899998643322222223456788887766554 466666655555543  23444 599999985

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=95.79  E-value=0.13  Score=39.29  Aligned_cols=65  Identities=15%  Similarity=0.078  Sum_probs=37.7

Q ss_pred             CCccEEEEcCCCCCCccc--------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ--------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~--------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.++++|+|+......        .....+..+|.++++.......-..-...+..  ..+.++ .+|+|+.+.
T Consensus        47 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~--~~~~~v-i~v~nK~D~  119 (157)
T cd04164          47 GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL--PADKPI-IVVLNKSDL  119 (157)
T ss_pred             CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh--hcCCCE-EEEEEchhc
Confidence            456789999996332111        12234457899999988875332222233332  234444 599999984

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=95.78  E-value=0.023  Score=49.58  Aligned_cols=40  Identities=15%  Similarity=0.159  Sum_probs=33.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++++-|+++ .|+||||++.++...+.+ .|..+++||+...
T Consensus        53 G~ivEi~G~-~ssGKttLaL~~ia~~q~-~g~~~a~ID~e~~   92 (322)
T PF00154_consen   53 GRIVEIYGP-ESSGKTTLALHAIAEAQK-QGGICAFIDAEHA   92 (322)
T ss_dssp             TSEEEEEES-TTSSHHHHHHHHHHHHHH-TT-EEEEEESSS-
T ss_pred             CceEEEeCC-CCCchhhhHHHHHHhhhc-ccceeEEecCccc
Confidence            689999877 578999999999999888 8999999998754

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=95.72  E-value=0.017  Score=52.80  Aligned_cols=42  Identities=21%  Similarity=0.260  Sum_probs=34.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.++++..|+|||+++.++|..+|...|++|++++++-..
T Consensus       194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm~~  235 (421)
T TIGR03600       194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSA  235 (421)
T ss_pred             CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCH
Confidence            345566899999999999999999983279999999988543

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>smart00053 DYNc Dynamin, GTPase

Probab=95.72  E-value=0.48  Score=39.77  Aligned_cols=67  Identities=19%  Similarity=0.064  Sum_probs=39.6

Q ss_pred             CCccEEEEcCCCCCCc------cc-------hhhhhhccC-ceEEEeeCCC-cchHHHHHHHHHHHhcCCCCeeeEEecc
Q 022525          138 GNLDILVIDMPPGTGD------AQ-------LTTTQTLQL-SGALIVSTPQ-DVALIDARKGITMFSKVQVPILGLVENM  202 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~------~~-------~~~~~l~~a-d~viiv~~~~-~~s~~~~~~~~~~l~~~~~~~~~~ViN~  202 (295)
                      ...|+++||+|+-...      ..       .....+... +.++.|+... ...-....++.+++...+.+.+ .|+|+
T Consensus       123 ~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~rti-~ViTK  201 (240)
T smart00053      123 HVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGERTI-GVITK  201 (240)
T ss_pred             CCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCcEE-EEEEC
Confidence            3589999999964321      00       112222323 3555555433 2234455677788877776665 89999


Q ss_pred             ccC
Q 022525          203 SCF  205 (295)
Q Consensus       203 ~~~  205 (295)
                      .+.
T Consensus       202 ~D~  204 (240)
T smart00053      202 LDL  204 (240)
T ss_pred             CCC
Confidence            984

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd04117 Rab15 Rab15 subfamily

Probab=95.68  E-value=0.2  Score=39.06  Aligned_cols=67  Identities=12%  Similarity=0.011  Sum_probs=41.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      .+.+.|.|+++..............+|.++++.+. +..++..+...++.+....  ...+.+|.|+.|.
T Consensus        48 ~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl  117 (161)
T cd04117          48 KVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADE  117 (161)
T ss_pred             EEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccc
Confidence            35678899986433222223344568888888764 4457777776666554431  2334589999884

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=95.68  E-value=0.031  Score=53.94  Aligned_cols=91  Identities=16%  Similarity=0.092  Sum_probs=71.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFG  218 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~  218 (295)
                      .|.+-+||||+..+...-....|..+|..|+|+.+...-...+...++++.+.+.|.+ +++|++|.-..       . -
T Consensus        75 ~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~~vp~i-~fiNKmDR~~a-------~-~  145 (697)
T COG0480          75 DYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKYGVPRI-LFVNKMDRLGA-------D-F  145 (697)
T ss_pred             ceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhcCCCeE-EEEECcccccc-------C-h
Confidence            4889999999998876666777888999999999999888899999999999999987 99999983211       1 1


Q ss_pred             CchhhHHHHHhCCcEEE-eec
Q 022525          219 KGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       219 ~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      ....+++...++..... .+|
T Consensus       146 ~~~~~~l~~~l~~~~~~v~~p  166 (697)
T COG0480         146 YLVVEQLKERLGANPVPVQLP  166 (697)
T ss_pred             hhhHHHHHHHhCCCceeeecc
Confidence            24577888888764432 455

>cd04114 Rab30 Rab30 subfamily

Probab=95.67  E-value=0.15  Score=39.85  Aligned_cols=66  Identities=9%  Similarity=0.017  Sum_probs=38.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.+.|+|+...........+..+|.++++.+.... ++......+..+..   .+.+.+ +|.|+.|.
T Consensus        55 ~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i-~v~NK~D~  124 (169)
T cd04114          55 KIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITI-LVGNKIDL  124 (169)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEE-EEEECccc
Confidence            35678899986433222223455678888888776543 44444444433332   345554 89999984

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.66  E-value=0.03  Score=49.56  Aligned_cols=42  Identities=26%  Similarity=0.214  Sum_probs=32.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH--h-C--CCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS--K-C--QLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~--~-~--g~~VlliD~D~~   72 (295)
                      ...|+...+..|+|||+++..|+...+.  . .  +.+|+.||....
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~t  171 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGT  171 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCC
Confidence            3566666799999999999999976652  0 1  369999999754

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.66  E-value=0.034  Score=43.13  Aligned_cols=35  Identities=34%  Similarity=0.446  Sum_probs=29.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +..|.|+ +..||||||++.-++-.|.+ .|++|.-+
T Consensus         5 ~mki~IT-G~PGvGKtTl~~ki~e~L~~-~g~kvgGf   39 (179)
T COG1618           5 AMKIFIT-GRPGVGKTTLVLKIAEKLRE-KGYKVGGF   39 (179)
T ss_pred             ceEEEEe-CCCCccHHHHHHHHHHHHHh-cCceeeeE
Confidence            4566664 88999999999999999999 99998655

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.64  E-value=0.025  Score=47.21  Aligned_cols=40  Identities=20%  Similarity=0.298  Sum_probs=33.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .++.+ .+..|+||||++.+++..+++ .|.+++.|+++...
T Consensus        25 ~~~~i-~G~~G~GKTtl~~~~~~~~~~-~g~~~~yi~~e~~~   64 (230)
T PRK08533         25 SLILI-EGDESTGKSILSQRLAYGFLQ-NGYSVSYVSTQLTT   64 (230)
T ss_pred             cEEEE-ECCCCCCHHHHHHHHHHHHHh-CCCcEEEEeCCCCH
Confidence            44444 589999999999999999999 99999999977543

>PRK13351 elongation factor G; Reviewed

Probab=95.61  E-value=0.16  Score=49.58  Aligned_cols=92  Identities=15%  Similarity=0.076  Sum_probs=64.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.++|||+..+........+..+|.+++|.+............++.+...+.+++ +|+|+.+....       . 
T Consensus        71 ~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-iviNK~D~~~~-------~-  141 (687)
T PRK13351         71 DNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRL-IFINKMDRVGA-------D-  141 (687)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE-EEEECCCCCCC-------C-
Confidence            46789999999754433344566778999999998876555556677777777788876 89999984311       1 


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      -...++++.+.++..... .+|
T Consensus       142 ~~~~~~~i~~~l~~~~~~~~~P  163 (687)
T PRK13351        142 LFKVLEDIEERFGKRPLPLQLP  163 (687)
T ss_pred             HHHHHHHHHHHHCCCeEEEEec
Confidence            124577888888876653 455

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=95.60  E-value=0.046  Score=47.55  Aligned_cols=67  Identities=12%  Similarity=0.069  Sum_probs=34.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +...+.++|||+..+--...+......|..++|++....--..+.+.+-. .+.-.+.+.+|+|+.+.
T Consensus        68 e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLii-g~~~c~klvvvinkid~  134 (522)
T KOG0461|consen   68 EQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLII-GELLCKKLVVVINKIDV  134 (522)
T ss_pred             ccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhh-hhhhccceEEEEecccc
Confidence            45668999999766521112222223466666665444321122222221 22334555699999874

>cd01893 Miro1 Miro1 subfamily

Probab=95.58  E-value=0.11  Score=40.80  Aligned_cols=67  Identities=21%  Similarity=0.229  Sum_probs=40.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHH-HHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDAR-KGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~-~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+++.|+|+|+...........+..+|.++++.... ..++..+. ..++.++.  .+.++ .+|.|+.+.
T Consensus        45 ~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pv-iiv~nK~Dl  115 (166)
T cd01893          45 ERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPI-ILVGNKSDL  115 (166)
T ss_pred             CeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhc
Confidence            5678999999854332122233456789888887654 34555543 23333432  34454 589999985

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>PRK06762 hypothetical protein; Provisional

Probab=95.55  E-value=0.021  Score=44.93  Aligned_cols=36  Identities=33%  Similarity=0.434  Sum_probs=26.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +++|.+ .+..|+||||+|..|+..+    |..+.+++.|.
T Consensus         2 ~~li~i-~G~~GsGKST~A~~L~~~l----~~~~~~i~~D~   37 (166)
T PRK06762          2 TTLIII-RGNSGSGKTTIAKQLQERL----GRGTLLVSQDV   37 (166)
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHh----CCCeEEecHHH
Confidence            455655 6999999999999888666    33577787654

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=95.53  E-value=0.11  Score=45.66  Aligned_cols=37  Identities=16%  Similarity=0.281  Sum_probs=28.9

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |.+.++==|+||||+--++...  . .|.|+.+|-.|...
T Consensus         6 v~iltGFLGaGKTTll~~ll~~--~-~~~riaVi~NEfG~   42 (318)
T PRK11537          6 VTLLTGFLGAGKTTLLRHILNE--Q-HGYKIAVIENEFGE   42 (318)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc--c-cCCcccccccCcCC
Confidence            4555688899999999988753  4 68899999777654

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.53  E-value=0.03  Score=46.66  Aligned_cols=40  Identities=20%  Similarity=0.146  Sum_probs=33.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +..+.+. +..|+||||++.+++...++ .|.+|++++++..
T Consensus        20 G~~~~i~-G~~G~GKT~l~~~~~~~~~~-~g~~~~~is~e~~   59 (229)
T TIGR03881        20 GFFVAVT-GEPGTGKTIFCLHFAYKGLR-DGDPVIYVTTEES   59 (229)
T ss_pred             CeEEEEE-CCCCCChHHHHHHHHHHHHh-cCCeEEEEEccCC
Confidence            4566664 78899999999999998888 8999999998643

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=95.52  E-value=0.12  Score=40.59  Aligned_cols=67  Identities=18%  Similarity=0.116  Sum_probs=42.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|+++.-.........+..+|.+|++...+. .++..+...+..+.+.  +.++ .+|.|+.+.
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~pi-iiv~nK~Dl  116 (166)
T cd00877          47 GKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPI-VLCGNKVDI  116 (166)
T ss_pred             EEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcE-EEEEEchhc
Confidence            45778999998643322222334456888888877654 3566665555555543  4555 499999985

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.50  E-value=0.015  Score=47.06  Aligned_cols=37  Identities=32%  Similarity=0.331  Sum_probs=31.5

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+.++-.|+||||+|-+||..|.+ .+.+|.-+..|..
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~-~i~~vi~l~kdy~   40 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQ-EIWRVIHLEKDYL   40 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHH-hhhhccccchhhh
Confidence            345688999999999999999999 9999987766654

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.49  E-value=0.031  Score=46.38  Aligned_cols=40  Identities=23%  Similarity=0.204  Sum_probs=34.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.+. +..|+|||+++.+++...++ .|.+|++++++..
T Consensus        16 g~~~li~-G~~G~GKt~~~~~~~~~~~~-~g~~~~y~s~e~~   55 (224)
T TIGR03880        16 GHVIVVI-GEYGTGKTTFSLQFLYQGLK-NGEKAMYISLEER   55 (224)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCCC
Confidence            4666665 56999999999999999999 8999999999864

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK09354 recA recombinase A; Provisional

Probab=95.47  E-value=0.028  Score=49.66  Aligned_cols=40  Identities=18%  Similarity=0.262  Sum_probs=34.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++-|+ +..|+||||++.+++...++ .|.+++.||+...
T Consensus        60 G~IteI~-G~~GsGKTtLal~~~~~~~~-~G~~~~yId~E~s   99 (349)
T PRK09354         60 GRIVEIY-GPESSGKTTLALHAIAEAQK-AGGTAAFIDAEHA   99 (349)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCcEEEECCccc
Confidence            3555554 67999999999999999999 9999999998753

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=95.46  E-value=0.061  Score=49.77  Aligned_cols=27  Identities=33%  Similarity=0.415  Sum_probs=22.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +-+++|+ +..|+||||+...|-..+.+
T Consensus        69 PfIvavv-GPpGtGKsTLirSlVrr~tk   95 (1077)
T COG5192          69 PFIVAVV-GPPGTGKSTLIRSLVRRFTK   95 (1077)
T ss_pred             CeEEEee-cCCCCChhHHHHHHHHHHHH
Confidence            3566665 77899999999999888887

>PRK05595 replicative DNA helicase; Provisional

Probab=95.46  E-value=0.025  Score=52.11  Aligned_cols=41  Identities=20%  Similarity=0.258  Sum_probs=34.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .-+.++++..|+|||+++.++|..+|...|++|+++.+.-.
T Consensus       201 g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEms  241 (444)
T PRK05595        201 GDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEMS  241 (444)
T ss_pred             CcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCCC
Confidence            45667789999999999999999887427999999988753

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.43  E-value=0.033  Score=46.75  Aligned_cols=40  Identities=18%  Similarity=0.071  Sum_probs=34.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .++.| .+..|+|||+++.++++..++ .|.+|++|.++...
T Consensus        22 s~~lI-~G~pGsGKT~la~~~l~~~~~-~ge~~lyvs~ee~~   61 (237)
T TIGR03877        22 NVVLL-SGGPGTGKSIFSQQFLWNGLQ-MGEPGIYVALEEHP   61 (237)
T ss_pred             eEEEE-EcCCCCCHHHHHHHHHHHHHH-cCCcEEEEEeeCCH
Confidence            44444 689999999999999999888 99999999998754

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=95.41  E-value=0.11  Score=48.32  Aligned_cols=67  Identities=10%  Similarity=0.040  Sum_probs=40.4

Q ss_pred             CCccEEEEcCCCCCC-------ccch----hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTG-------DAQL----TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~-------~~~~----~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ++..+.++|||+-..       ...+    +...+..||.+++|...+......-...+..+...+.+++ +|+|+.|.
T Consensus       257 ~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~~~~piI-iV~NK~Dl  334 (472)
T PRK03003        257 GGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQRVLSMVIEAGRALV-LAFNKWDL  334 (472)
T ss_pred             CCEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECccc
Confidence            345578899985210       0011    1123457899999988766432333345566655666664 99999984

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=95.41  E-value=0.051  Score=48.76  Aligned_cols=42  Identities=24%  Similarity=0.365  Sum_probs=37.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ++++|+|+ +..|+||||+...|...|.+ +|++|.+|-.|...
T Consensus       204 ~~~~~~~~-g~~~~GKtt~~~~l~~~l~~-~g~~v~~iKh~~h~  245 (366)
T PRK14489        204 APPLLGVV-GYSGTGKTTLLEKLIPELIA-RGYRIGLIKHSHHR  245 (366)
T ss_pred             CccEEEEe-cCCCCCHHHHHHHHHHHHHH-cCCEEEEEEECCcc
Confidence            46899997 56899999999999999999 99999999887553

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.40  E-value=0.03  Score=50.20  Aligned_cols=38  Identities=29%  Similarity=0.359  Sum_probs=33.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+.+.++..|+||||++..+|..+++ .|.+|++|+...
T Consensus        83 slvLI~G~pG~GKStLllq~a~~~a~-~g~~VlYvs~EE  120 (372)
T cd01121          83 SVILIGGDPGIGKSTLLLQVAARLAK-RGGKVLYVSGEE  120 (372)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeEEEEECCc
Confidence            45556789999999999999999999 899999998764

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK12377 putative replication protein; Provisional

Probab=95.39  E-value=0.029  Score=47.36  Aligned_cols=36  Identities=25%  Similarity=0.258  Sum_probs=30.4

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      -+.+ .+..|+|||.++..+|..+.+ .|++|+++...
T Consensus       103 ~l~l-~G~~GtGKThLa~AIa~~l~~-~g~~v~~i~~~  138 (248)
T PRK12377        103 NFVF-SGKPGTGKNHLAAAIGNRLLA-KGRSVIVVTVP  138 (248)
T ss_pred             eEEE-ECCCCCCHHHHHHHHHHHHHH-cCCCeEEEEHH
Confidence            4444 478899999999999999999 99999988653

>cd00157 Rho Rho (Ras homology) family

Probab=95.38  E-value=0.055  Score=42.37  Aligned_cols=68  Identities=15%  Similarity=0.075  Sum_probs=41.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHH-HHHHHhcC--CCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARK-GITMFSKV--QVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~-~~~~l~~~--~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.++|+|+......+....+..+|.++++...+. .++..... .+..+...  +.++ .+|.|+.+..
T Consensus        46 ~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-ivv~nK~Dl~  117 (171)
T cd00157          46 KQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPI-ILVGTKIDLR  117 (171)
T ss_pred             EEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCE-EEEEccHHhh
Confidence            56789999999754322233333456899999988766 45444433 23333322  3444 5999999853

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.38  E-value=0.037  Score=47.85  Aligned_cols=155  Identities=16%  Similarity=0.128  Sum_probs=78.5

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHh---CCCeEEEEEeCCCCCCcccccccCCCc---cccccCcccccccCCceeec
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASK---CQLKVGLLDADVYGPSVPMMMKIDQKP---EVTKDMKMVPIENYGVKCMS  106 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~---~g~~VlliD~D~~~~~~~~~~g~~~~~---~~~~~~~~~~~~~~~~~~~~  106 (295)
                      .+...-+..|+|||+++-.||+.|.-+   +-.+..+|+.+... -.+-||+....-   -+.+...... ...++.++=
T Consensus       178 RliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshs-LFSKWFsESgKlV~kmF~kI~ELv~-d~~~lVfvL  255 (423)
T KOG0744|consen  178 RLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHS-LFSKWFSESGKLVAKMFQKIQELVE-DRGNLVFVL  255 (423)
T ss_pred             eEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhH-HHHHHHhhhhhHHHHHHHHHHHHHh-CCCcEEEEE
Confidence            344445889999999999999999841   23567788777643 444555443210   0000000000 011111111


Q ss_pred             ccc---cc----CCCCCCccC-CchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH
Q 022525          107 MGF---LV----PSSSPVVWR-GPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL  178 (295)
Q Consensus       107 ~~~---~~----~~~~~~~~~-~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~  178 (295)
                      .+.   +-    +.....+.. .......+-..++.++ ...+++|+=|. .+.+ .+..+..-.||.+..|-.|+..++
T Consensus       256 IDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK-~~~NvliL~TS-Nl~~-siD~AfVDRADi~~yVG~Pt~~ai  332 (423)
T KOG0744|consen  256 IDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLK-RYPNVLILATS-NLTD-SIDVAFVDRADIVFYVGPPTAEAI  332 (423)
T ss_pred             eHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhc-cCCCEEEEecc-chHH-HHHHHhhhHhhheeecCCccHHHH
Confidence            000   00    000000001 1112334444556665 55566666555 4443 445555668999999988888877


Q ss_pred             HHHHH-HHHHHhcCC
Q 022525          179 IDARK-GITMFSKVQ  192 (295)
Q Consensus       179 ~~~~~-~~~~l~~~~  192 (295)
                      ..+.+ .++.+-+.|
T Consensus       333 ~~IlkscieEL~~~g  347 (423)
T KOG0744|consen  333 YEILKSCIEELISSG  347 (423)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            76653 444544443

>PRK11823 DNA repair protein RadA; Provisional

Probab=95.37  E-value=0.031  Score=51.43  Aligned_cols=39  Identities=28%  Similarity=0.390  Sum_probs=34.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ..+.+..+..|+||||++..++..+++ .|.+|++|+...
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~-~g~~vlYvs~Ee  118 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAA-AGGKVLYVSGEE  118 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEEccc
Confidence            345566789999999999999999998 899999999764

>PRK08760 replicative DNA helicase; Provisional

Probab=95.37  E-value=0.026  Score=52.34  Aligned_cols=42  Identities=21%  Similarity=0.302  Sum_probs=34.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.+.++..|+|||+++.++|...|.+.|++|+++.++-..
T Consensus       229 G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~  270 (476)
T PRK08760        229 TDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSA  270 (476)
T ss_pred             CceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCH
Confidence            356666899999999999999999986269999999887644

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=95.37  E-value=0.06  Score=49.35  Aligned_cols=68  Identities=15%  Similarity=0.086  Sum_probs=42.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch---HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA---LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s---~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+.-.........+..+|.+++|++.+...   ...+...+..+...+.+.+.+++|+.|.
T Consensus        83 ~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl  153 (426)
T TIGR00483        83 DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDS  153 (426)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcCCCeEEEEEEChhc
Confidence            5678999999964321111233345789999998877652   2223333334444565666689999995

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.36  E-value=0.038  Score=47.08  Aligned_cols=44  Identities=18%  Similarity=0.187  Sum_probs=37.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSV   76 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~   76 (295)
                      +.++.| .+..|+|||+++.++++..++ .|.+|+.|.++.....+
T Consensus        23 g~~~lI-~G~pGsGKT~f~~qfl~~~~~-~ge~vlyvs~~e~~~~l   66 (260)
T COG0467          23 GSVVLI-TGPPGTGKTIFALQFLYEGAR-EGEPVLYVSTEESPEEL   66 (260)
T ss_pred             CcEEEE-EcCCCCcHHHHHHHHHHHHHh-cCCcEEEEEecCCHHHH
Confidence            455555 589999999999999999999 89999999999766443

>PRK09183 transposase/IS protein; Provisional

Probab=95.36  E-value=0.03  Score=47.68  Aligned_cols=35  Identities=29%  Similarity=0.451  Sum_probs=29.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      ..+.++ +..|+|||+++..+|..+.. .|++|+.++
T Consensus       103 ~~v~l~-Gp~GtGKThLa~al~~~a~~-~G~~v~~~~  137 (259)
T PRK09183        103 ENIVLL-GPSGVGKTHLAIALGYEAVR-AGIKVRFTT  137 (259)
T ss_pred             CeEEEE-eCCCCCHHHHHHHHHHHHHH-cCCeEEEEe
Confidence            445554 67899999999999999888 999999885

>TIGR00416 sms DNA repair protein RadA

Probab=95.31  E-value=0.031  Score=51.54  Aligned_cols=38  Identities=32%  Similarity=0.458  Sum_probs=33.5

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      -+.+.++..|+||||++..++..+++ .|.+|++|+.+.
T Consensus        95 svilI~G~pGsGKTTL~lq~a~~~a~-~g~kvlYvs~EE  132 (454)
T TIGR00416        95 SLILIGGDPGIGKSTLLLQVACQLAK-NQMKVLYVSGEE  132 (454)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHh-cCCcEEEEECcC
Confidence            45556799999999999999999999 899999998864

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK08506 replicative DNA helicase; Provisional

Probab=95.31  E-value=0.03  Score=51.98  Aligned_cols=41  Identities=15%  Similarity=0.279  Sum_probs=35.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.++++..|+|||+++.++|..+++ .|++|+++.++-..
T Consensus       192 G~LivIaarpg~GKT~fal~ia~~~~~-~g~~V~~fSlEMs~  232 (472)
T PRK08506        192 GDLIIIAARPSMGKTTLCLNMALKALN-QDKGVAFFSLEMPA  232 (472)
T ss_pred             CceEEEEcCCCCChHHHHHHHHHHHHh-cCCcEEEEeCcCCH
Confidence            446666899999999999999999998 89999999888644

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.31  E-value=0.044  Score=48.53  Aligned_cols=42  Identities=19%  Similarity=0.085  Sum_probs=31.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH--h---CCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS--K---CQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~--~---~g~~VlliD~D~~~   73 (295)
                      -.|....+..|+|||+++..++...+.  .   .+.+|+.||.....
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f  169 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTF  169 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCc
Confidence            455556689999999999999976542  0   12489999998643

>cd01874 Cdc42 Cdc42 subfamily

Probab=95.30  E-value=0.24  Score=39.31  Aligned_cols=67  Identities=10%  Similarity=0.049  Sum_probs=41.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHH-HHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARK-GITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~-~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+++.-.........+..+|.+|++.+.+ ..++..+.. .+..+.+  .+.|+ .+|.|+.+.
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~pi-ilvgnK~Dl  117 (175)
T cd01874          47 EPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPF-LLVGTQIDL  117 (175)
T ss_pred             EEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEECHhh
Confidence            4577899999965432222223455789888887744 446666653 4444443  24445 599999884

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=95.29  E-value=0.032  Score=45.45  Aligned_cols=35  Identities=40%  Similarity=0.446  Sum_probs=28.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++.+|+++ ++-|+||||++-    .|++ .|.+|  ||+|--
T Consensus         1 ~~~iIglT-G~igsGKStva~----~~~~-~G~~v--idaD~v   35 (201)
T COG0237           1 MMLIIGLT-GGIGSGKSTVAK----ILAE-LGFPV--IDADDV   35 (201)
T ss_pred             CceEEEEe-cCCCCCHHHHHH----HHHH-cCCeE--EEccHH
Confidence            46899998 888999999887    6777 78887  588753

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=95.28  E-value=0.11  Score=50.93  Aligned_cols=67  Identities=13%  Similarity=0.080  Sum_probs=42.4

Q ss_pred             CCccEEEEcCCCCCCcc--------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA--------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~--------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|||+.....        ......+..||.+|+|+.....-...-....+.+++.+.+++ +|+|+.+.
T Consensus       321 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~pvI-lV~NK~D~  395 (712)
T PRK09518        321 AGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVV-LAVNKIDD  395 (712)
T ss_pred             CCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEE-EEEECccc
Confidence            45678999999633210        111233567999999998765322222345666666677665 89999984

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=95.14  E-value=0.18  Score=44.88  Aligned_cols=66  Identities=17%  Similarity=0.053  Sum_probs=37.9

Q ss_pred             CccEEEEcCCCCCCc-cc-------hhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGD-AQ-------LTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~-~~-------~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      ...++|+||++.... ..       -+...+..||.+++|.+.+.. +........+.+..   .+.++ .+|+|+.|.
T Consensus       236 ~~~i~l~DT~G~~~~l~~~lie~f~~tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~pi-IlV~NK~Dl  313 (351)
T TIGR03156       236 GGEVLLTDTVGFIRDLPHELVAAFRATLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQ-LLVYNKIDL  313 (351)
T ss_pred             CceEEEEecCcccccCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCE-EEEEEeecC
Confidence            456899999864221 00       112235578999999876543 33333323333333   24444 499999984

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>PRK05642 DNA replication initiation factor; Validated

Probab=95.14  E-value=0.033  Score=46.63  Aligned_cols=36  Identities=19%  Similarity=0.124  Sum_probs=31.3

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+..+..|+|||.++..++..+.+ .|.+|+.++++-
T Consensus        48 l~l~G~~G~GKTHLl~a~~~~~~~-~~~~v~y~~~~~   83 (234)
T PRK05642         48 IYLWGKDGVGRSHLLQAACLRFEQ-RGEPAVYLPLAE   83 (234)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh-CCCcEEEeeHHH
Confidence            345589999999999999999998 899999998763

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.13  E-value=0.033  Score=46.30  Aligned_cols=40  Identities=25%  Similarity=0.211  Sum_probs=31.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~   73 (295)
                      .++.+ .+..|+|||+++.++++..++ . |.+|++|.++...
T Consensus        20 s~~li-~G~~GsGKT~l~~q~l~~~~~-~~ge~vlyvs~ee~~   60 (226)
T PF06745_consen   20 SVVLI-SGPPGSGKTTLALQFLYNGLK-NFGEKVLYVSFEEPP   60 (226)
T ss_dssp             SEEEE-EESTTSSHHHHHHHHHHHHHH-HHT--EEEEESSS-H
T ss_pred             cEEEE-EeCCCCCcHHHHHHHHHHhhh-hcCCcEEEEEecCCH
Confidence            45555 588999999999999999999 8 9999999987644

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>COG4240 Predicted kinase [General function prediction only]

Probab=95.12  E-value=0.044  Score=45.02  Aligned_cols=41  Identities=29%  Similarity=0.237  Sum_probs=34.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCC-CeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQ-LKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g-~~VlliD~D~~~   73 (295)
                      ..|..+|+..|+||||++..+-..|+. .| .+|+-+.+|--.
T Consensus        50 Pli~gisGpQGSGKStls~~i~~~L~~-kg~ert~~lSLDDlY   91 (300)
T COG4240          50 PLIVGISGPQGSGKSTLSALIVRLLAA-KGLERTATLSLDDLY   91 (300)
T ss_pred             ceEEEeecCCCCchhhHHHHHHHHHHH-hcccceEEeehhhhh
Confidence            556666899999999999999999999 77 799999888543

>TIGR00665 DnaB replicative DNA helicase

Probab=95.12  E-value=0.038  Score=50.77  Aligned_cols=42  Identities=19%  Similarity=0.263  Sum_probs=35.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.+.++..|+|||+++.++|..+|...|.+|+++.++-..
T Consensus       195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~  236 (434)
T TIGR00665       195 SDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSA  236 (434)
T ss_pred             CeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCH
Confidence            345666899999999999999999986369999999888654

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>PRK06749 replicative DNA helicase; Provisional

Probab=95.10  E-value=0.035  Score=50.80  Aligned_cols=41  Identities=22%  Similarity=0.346  Sum_probs=35.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .-+.|.++..|+|||+++.++|...|+ .|++|+++.+.-..
T Consensus       186 G~LiiIaarPgmGKTafal~ia~~~a~-~g~~v~~fSlEMs~  226 (428)
T PRK06749        186 GDFVVLGARPSMGKTAFALNVGLHAAK-SGAAVGLFSLEMSS  226 (428)
T ss_pred             CcEEEEEeCCCCCchHHHHHHHHHHHh-cCCCEEEEEeeCCH
Confidence            445666899999999999999999999 89999999887654

>PRK08727 hypothetical protein; Validated

Probab=95.06  E-value=0.037  Score=46.30  Aligned_cols=35  Identities=26%  Similarity=0.300  Sum_probs=30.3

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+..+..|+|||.++..++..+.+ .|++|.++.++
T Consensus        44 l~l~G~~G~GKThL~~a~~~~~~~-~~~~~~y~~~~   78 (233)
T PRK08727         44 LYLSGPAGTGKTHLALALCAAAEQ-AGRSSAYLPLQ   78 (233)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEEeHH
Confidence            444588999999999999999999 89999999753

>TIGR00101 ureG urease accessory protein UreG

Probab=95.06  E-value=0.25  Score=40.25  Aligned_cols=38  Identities=32%  Similarity=0.465  Sum_probs=29.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .|+++ +..|+||||+...+...+.. . .++.++..|...
T Consensus         3 ~i~i~-G~~GsGKTTll~~l~~~l~~-~-~~~~~~~~d~~~   40 (199)
T TIGR00101         3 KIGVA-GPVGSGKTALIEALTRALRQ-K-YQLAVITNDIYT   40 (199)
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHhhCc-C-CcEEEEeCCcCC
Confidence            45554 88999999999999988776 4 457777777544

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=95.05  E-value=0.045  Score=41.28  Aligned_cols=40  Identities=25%  Similarity=0.164  Sum_probs=32.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.+.+ .+..|+||||++..++..+.. .+.++..+++....
T Consensus        20 ~~v~i-~G~~G~GKT~l~~~i~~~~~~-~~~~v~~~~~~~~~   59 (151)
T cd00009          20 KNLLL-YGPPGTGKTTLARAIANELFR-PGAPFLYLNASDLL   59 (151)
T ss_pred             CeEEE-ECCCCCCHHHHHHHHHHHhhc-CCCCeEEEehhhhh
Confidence            44444 589999999999999999988 88999999876543

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=95.05  E-value=0.08  Score=47.57  Aligned_cols=88  Identities=13%  Similarity=0.000  Sum_probs=70.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      .++-+=|+|||+.-+.+.-++..|.++|-.|+|......--..+.++.+-|+-.++|++ ..+|+.+..        ..-
T Consensus        79 ~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~KLfeVcrlR~iPI~-TFiNKlDR~--------~rd  149 (528)
T COG4108          79 ADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLRDIPIF-TFINKLDRE--------GRD  149 (528)
T ss_pred             CCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHHHHHHHHHhhcCCceE-EEeeccccc--------cCC
Confidence            34556789999987777777888889999999999998878888999999988899987 899999832        111


Q ss_pred             CCchhhHHHHHhCCcEE
Q 022525          218 GKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~  234 (295)
                      .-+.++++.+.+++.+.
T Consensus       150 P~ELLdEiE~~L~i~~~  166 (528)
T COG4108         150 PLELLDEIEEELGIQCA  166 (528)
T ss_pred             hHHHHHHHHHHhCccee
Confidence            23668999999988764

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.04  E-value=0.037  Score=48.76  Aligned_cols=37  Identities=24%  Similarity=0.211  Sum_probs=31.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +-+.++ +..|+|||+++..+|..+.. .|++|+.++++
T Consensus       184 ~~Lll~-G~~GtGKThLa~aIa~~l~~-~g~~V~y~t~~  220 (329)
T PRK06835        184 ENLLFY-GNTGTGKTFLSNCIAKELLD-RGKSVIYRTAD  220 (329)
T ss_pred             CcEEEE-CCCCCcHHHHHHHHHHHHHH-CCCeEEEEEHH
Confidence            445554 67899999999999999999 99999999764

>PRK08006 replicative DNA helicase; Provisional

Probab=95.02  E-value=0.043  Score=50.83  Aligned_cols=42  Identities=21%  Similarity=0.268  Sum_probs=34.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .-+.|+++..|+|||+++.|+|..+|...|++|+++.+.-..
T Consensus       224 G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlEM~~  265 (471)
T PRK08006        224 SDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPG  265 (471)
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEeccCCH
Confidence            456666899999999999999999995369999999887543

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.01  E-value=0.047  Score=50.93  Aligned_cols=41  Identities=20%  Similarity=0.233  Sum_probs=36.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      -.+.+.++..|+||||++.++++..++ +|.+|+++-++...
T Consensus       263 gs~~li~G~~G~GKt~l~~~f~~~~~~-~ge~~~y~s~eEs~  303 (484)
T TIGR02655       263 DSIILATGATGTGKTLLVSKFLENACA-NKERAILFAYEESR  303 (484)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEEeeCCH
Confidence            456666799999999999999999999 99999999988654

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=95.00  E-value=0.098  Score=39.27  Aligned_cols=67  Identities=16%  Similarity=0.086  Sum_probs=40.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHH-----HHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGI-----TMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~-----~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+++.++|+|+...........+..+|.++++...............     ......+.++ .+|+|+.+.
T Consensus        43 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~-ivv~nk~D~  114 (157)
T cd00882          43 KKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPI-ILVGNKIDL  114 (157)
T ss_pred             EEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcE-EEEEecccc
Confidence            568899999996443223334455678888888877764433322221     2222334455 599999884

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=95.00  E-value=0.038  Score=45.74  Aligned_cols=39  Identities=18%  Similarity=0.095  Sum_probs=32.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ..|.++ ++.|+|||+++..++..+.+ .+.+++.+|++..
T Consensus        39 ~~lll~-G~~G~GKT~la~~~~~~~~~-~~~~~~~i~~~~~   77 (226)
T TIGR03420        39 RFLYLW-GESGSGKSHLLQAACAAAEE-RGKSAIYLPLAEL   77 (226)
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHHHh-cCCcEEEEeHHHH
Confidence            455554 78899999999999999988 8999999987644

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK06904 replicative DNA helicase; Validated

Probab=94.97  E-value=0.044  Score=50.79  Aligned_cols=42  Identities=19%  Similarity=0.252  Sum_probs=34.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .-+.|.++..|+|||+++.|+|...|...|++|+++.+.-..
T Consensus       221 G~LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fSlEMs~  262 (472)
T PRK06904        221 SDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMPA  262 (472)
T ss_pred             CcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCH
Confidence            446666899999999999999999986369999999887543

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=94.95  E-value=0.036  Score=50.48  Aligned_cols=68  Identities=15%  Similarity=0.090  Sum_probs=48.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|||+...........+..+|.+++|+.....-...+.+.+..+...+.+.+.+++|+.|.
T Consensus        78 ~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~~~~iivviNK~D~  145 (406)
T TIGR02034        78 DKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMDL  145 (406)
T ss_pred             CCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcCCCcEEEEEEeccc
Confidence            45679999999643321223456778999999999876555555566666666677666689999995

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=94.94  E-value=0.062  Score=43.40  Aligned_cols=36  Identities=28%  Similarity=0.254  Sum_probs=30.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      ++.|+|. +--|+||||++..|+..|.. .|++|..+-
T Consensus         3 g~~Ivie-G~~GsGKsT~~~~L~~~l~~-~g~~v~~~~   38 (195)
T TIGR00041         3 GMFIVIE-GIDGAGKTTQANLLKKLLQE-NGYDVLFTR   38 (195)
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEEe
Confidence            4667775 78899999999999999999 999997664

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=94.94  E-value=0.047  Score=45.42  Aligned_cols=36  Identities=22%  Similarity=0.181  Sum_probs=31.6

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+..+..|+|||+++..++..+.. .|.++..+++..
T Consensus        45 ~~l~G~~G~GKT~La~ai~~~~~~-~~~~~~~i~~~~   80 (227)
T PRK08903         45 FYLWGEAGSGRSHLLQALVADASY-GGRNARYLDAAS   80 (227)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh-CCCcEEEEehHH
Confidence            344599999999999999999988 899999998865

>cd04134 Rho3 Rho3 subfamily

Probab=94.93  E-value=0.32  Score=39.08  Aligned_cols=67  Identities=12%  Similarity=0.039  Sum_probs=39.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+++.|.|+++......+.......+|.++++...+. .+++.+. ..+..+..  .+.+ +.+|.|+.|.
T Consensus        46 ~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~p-iilvgNK~Dl  116 (189)
T cd04134          46 LHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVK-LVLVALKCDL  116 (189)
T ss_pred             EEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhh
Confidence            34778999999643321222223446788887765443 4565554 23444443  2444 4599999984

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional

Probab=94.91  E-value=0.06  Score=47.54  Aligned_cols=42  Identities=26%  Similarity=0.378  Sum_probs=36.5

Q ss_pred             CeEEEEeeC-CCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASG-KGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~-kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+||.|-|- -||+|||-++..|+..|.+ +|++|.+|.-.+.+
T Consensus        56 vPVIsVGNitvGGTGKTP~v~~La~~l~~-~G~~~~IlSRGYg~   98 (338)
T PRK01906         56 VPVVVVGNVTVGGTGKTPTVIALVDALRA-AGFTPGVVSRGYGA   98 (338)
T ss_pred             CCEEEECCccCCCCChHHHHHHHHHHHHH-cCCceEEEecCCCC
Confidence            478888774 5899999999999999999 99999999776654

>PRK05748 replicative DNA helicase; Provisional

Probab=94.89  E-value=0.044  Score=50.62  Aligned_cols=42  Identities=21%  Similarity=0.389  Sum_probs=34.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.+.++..|+|||+++.++|...|...|.+|+++.+.-..
T Consensus       203 G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~  244 (448)
T PRK05748        203 NDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGA  244 (448)
T ss_pred             CceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCH
Confidence            345566799999999999999999985269999999887654

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=94.89  E-value=0.046  Score=45.34  Aligned_cols=40  Identities=25%  Similarity=0.248  Sum_probs=33.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC------CeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ------LKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g------~~VlliD~D~~   72 (295)
                      +.++.|+ +..|+|||+++.++|...+. .+      .+|+.||.+..
T Consensus        19 g~v~~I~-G~~GsGKT~l~~~ia~~~~~-~~~~~g~~~~v~yi~~e~~   64 (226)
T cd01393          19 GRITEIF-GEFGSGKTQLCLQLAVEAQL-PGELGGLEGKVVYIDTEGA   64 (226)
T ss_pred             CcEEEEe-CCCCCChhHHHHHHHHHhhc-ccccCCCcceEEEEecCCC
Confidence            4666665 69999999999999999888 77      89999998753

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=94.89  E-value=0.17  Score=43.91  Aligned_cols=68  Identities=12%  Similarity=0.051  Sum_probs=34.1

Q ss_pred             CCccEEEEcCCCCCCccchh---hhhhc------cCceEEEeeCCCcchHHHH-HHHHHHHhc-CCC---CeeeEEeccc
Q 022525          138 GNLDILVIDMPPGTGDAQLT---TTQTL------QLSGALIVSTPQDVALIDA-RKGITMFSK-VQV---PILGLVENMS  203 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~---~~~l~------~ad~viiv~~~~~~s~~~~-~~~~~~l~~-~~~---~~~~~ViN~~  203 (295)
                      .++.+.|||||+-.+.....   ...+.      ..|.+++|...+...+... ...++.+.. +|.   ....+|+++.
T Consensus        84 ~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~  163 (313)
T TIGR00991        84 AGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHA  163 (313)
T ss_pred             CCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECC
Confidence            45678999998533321111   11111      3677888865443322211 233333332 121   2355889988


Q ss_pred             cC
Q 022525          204 CF  205 (295)
Q Consensus       204 ~~  205 (295)
                      +.
T Consensus       164 d~  165 (313)
T TIGR00991       164 QF  165 (313)
T ss_pred             cc
Confidence            74

>PRK08840 replicative DNA helicase; Provisional

Probab=94.88  E-value=0.049  Score=50.35  Aligned_cols=43  Identities=19%  Similarity=0.227  Sum_probs=35.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ..-+.+.++..|+|||+++.|+|...|...|++|+++.+.-..
T Consensus       216 ~g~LiviaarPg~GKTafalnia~~~a~~~~~~v~~fSlEMs~  258 (464)
T PRK08840        216 GSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPA  258 (464)
T ss_pred             CCceEEEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEeccCCH
Confidence            3456666899999999999999999985369999999888543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=94.88  E-value=0.047  Score=47.66  Aligned_cols=38  Identities=29%  Similarity=0.229  Sum_probs=31.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+-+.++ +.-|+|||.++..+|..+++ .|.+|.++.+.
T Consensus       156 ~~gl~L~-G~~G~GKThLa~Aia~~l~~-~g~~v~~~~~~  193 (306)
T PRK08939        156 VKGLYLY-GDFGVGKSYLLAAIANELAK-KGVSSTLLHFP  193 (306)
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHHHH-cCCCEEEEEHH
Confidence            3455554 67899999999999999999 99999999653

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=94.87  E-value=0.072  Score=48.23  Aligned_cols=68  Identities=12%  Similarity=0.058  Sum_probs=57.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ++|-+=|+|||+..+...-.-..|...|.+++++.+....+-.+.-.++.....+++++ +|+|+++..
T Consensus        66 ~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~~gL~PI-VVvNKiDrp  133 (603)
T COG1217          66 NGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALALGLKPI-VVINKIDRP  133 (603)
T ss_pred             CCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccCCCCchhhhHHHHHHcCCCcE-EEEeCCCCC
Confidence            77889999999877655444556778899999999999999999999998888999887 999999843

>PRK08118 topology modulation protein; Reviewed

Probab=94.85  E-value=0.035  Score=43.87  Aligned_cols=25  Identities=44%  Similarity=0.531  Sum_probs=18.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      .|.|+ +.+|+||||+|..|+..+.-
T Consensus         3 rI~I~-G~~GsGKSTlak~L~~~l~~   27 (167)
T PRK08118          3 KIILI-GSGGSGKSTLARQLGEKLNI   27 (167)
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHhCC
Confidence            44444 78999999999887755433

>PTZ00035 Rad51 protein; Provisional

Probab=94.82  E-value=0.093  Score=46.46  Aligned_cols=41  Identities=20%  Similarity=0.154  Sum_probs=30.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~~   72 (295)
                      +.++-| .+..|+|||+++..++.....-     .+.+|+.||....
T Consensus       118 G~iteI-~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~  163 (337)
T PTZ00035        118 GSITEL-FGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGT  163 (337)
T ss_pred             CeEEEE-ECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCC
Confidence            344445 5799999999999998775410     2568999998653

>COG2759 MIS1 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]

Probab=94.81  E-value=0.029  Score=50.34  Aligned_cols=64  Identities=23%  Similarity=0.267  Sum_probs=45.4

Q ss_pred             CCeEEEEee---CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCccccc
Q 022525           30 VKDVIAVAS---GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPI   97 (295)
Q Consensus        30 ~~~vI~i~s---~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~   97 (295)
                      .+|.|.|++   ..-|.||||++..|+.+|.+ .|+++.+-   ...|++--.||++....-.....+.|.
T Consensus        51 ~gKlILVTaitPTPaGEGKsTttiGL~~al~~-lgK~~i~a---lRePSlGP~fGiKGGAaGGGyaqv~Pm  117 (554)
T COG2759          51 DGKLILVTAITPTPAGEGKTTTTIGLVDALNK-LGKKAIIA---LREPSLGPVFGIKGGAAGGGYAQVLPM  117 (554)
T ss_pred             CceEEEEEecCCCCCCCCcceeeehHHHHHHh-cCchheEE---eccCCcCCccccccccCCCceeeeeeh
Confidence            467776665   56799999999999999999 99998654   445677777888764333333333333

>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2

Probab=94.78  E-value=0.034  Score=43.99  Aligned_cols=29  Identities=31%  Similarity=0.432  Sum_probs=22.7

Q ss_pred             CCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           40 KGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        40 kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      --|=||||-|..+|...+- +|.||+++-+
T Consensus        11 G~GKGKTTAAlGlalRA~G-~G~rV~ivQF   39 (172)
T PF02572_consen   11 GDGKGKTTAALGLALRAAG-HGMRVLIVQF   39 (172)
T ss_dssp             SSSS-HHHHHHHHHHHHHC-TT--EEEEES
T ss_pred             CCCCCchHHHHHHHHHHHh-CCCEEEEEEE
Confidence            3477999999999999999 9999999954

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.

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=94.77  E-value=0.11  Score=42.41  Aligned_cols=105  Identities=14%  Similarity=0.190  Sum_probs=57.7

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      .+.+.=+--|+|||-++..+++-+-+ .|++|.++.....  . ..+...-..-+.+ .....  -...+.++|..    
T Consensus        29 sL~lIEGd~~tGKSvLsqr~~YG~L~-~g~~v~yvsTe~T--~-refi~qm~sl~yd-v~~~~--l~G~l~~~~~~----   97 (235)
T COG2874          29 SLILIEGDNGTGKSVLSQRFAYGFLM-NGYRVTYVSTELT--V-REFIKQMESLSYD-VSDFL--LSGRLLFFPVN----   97 (235)
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHh-CCceEEEEEechh--H-HHHHHHHHhcCCC-chHHH--hcceeEEEEec----
Confidence            34444588899999999999999999 9999999965432  1 2222110000000 00000  00111222211    


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCC
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPP  149 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~  149 (295)
                       .....+........++.+++..+..++|+||||+=.
T Consensus        98 -~~~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls  133 (235)
T COG2874          98 -LEPVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLS  133 (235)
T ss_pred             -ccccccChHHHHHHHHHHHhhHHhhcCCEEEEeccc
Confidence             112222233334556666666666899999999853

>PRK08181 transposase; Validated

Probab=94.77  E-value=0.043  Score=46.91  Aligned_cols=33  Identities=27%  Similarity=0.286  Sum_probs=29.3

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      +..+..|+|||.++..+|..+.+ .|++|+.+.+
T Consensus       110 ll~Gp~GtGKTHLa~Aia~~a~~-~g~~v~f~~~  142 (269)
T PRK08181        110 LLFGPPGGGKSHLAAAIGLALIE-NGWRVLFTRT  142 (269)
T ss_pred             EEEecCCCcHHHHHHHHHHHHHH-cCCceeeeeH
Confidence            33488999999999999999999 9999999865

>PRK06893 DNA replication initiation factor; Validated

Probab=94.77  E-value=0.052  Score=45.31  Aligned_cols=35  Identities=14%  Similarity=-0.036  Sum_probs=31.0

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+..+..|+|||+++..+|..+.+ .|.+|.+++++
T Consensus        42 l~l~G~~G~GKThL~~ai~~~~~~-~~~~~~y~~~~   76 (229)
T PRK06893         42 FYIWGGKSSGKSHLLKAVSNHYLL-NQRTAIYIPLS   76 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-cCCCeEEeeHH
Confidence            344589999999999999999999 89999999875

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=94.72  E-value=0.082  Score=45.68  Aligned_cols=41  Identities=37%  Similarity=0.422  Sum_probs=33.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC--CCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC--QLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~--g~~VlliD~D~~~   73 (295)
                      +.+|+| .+..|+||||++.-|...+.+ .  +.+|.++..|...
T Consensus        62 p~IIGI-aG~~GSGKSTlar~L~~ll~~-~~~~g~V~vi~~D~f~  104 (290)
T TIGR00554        62 PYIISI-AGSVAVGKSTTARILQALLSR-WPEHRKVELITTDGFL  104 (290)
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHHHhh-cCCCCceEEEeccccc
Confidence            467777 588999999999999988885 3  4579999888755

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=94.71  E-value=0.16  Score=49.78  Aligned_cols=67  Identities=18%  Similarity=0.034  Sum_probs=41.3

Q ss_pred             CCccEEEEcCCCCCC-------ccch----hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTG-------DAQL----TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~-------~~~~----~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ++.++.++|||+-..       ...+    +...+..+|.++++..........-.+.+..+...+.+++ +|+|+.|.
T Consensus       496 ~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~~~piI-iV~NK~DL  573 (712)
T PRK09518        496 DGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLKVMSMAVDAGRALV-LVFNKWDL  573 (712)
T ss_pred             CCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEEchhc
Confidence            445688999995211       0011    1223557899999988766433333445555555666665 99999984

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=94.70  E-value=0.036  Score=45.77  Aligned_cols=34  Identities=29%  Similarity=0.417  Sum_probs=26.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHH--------HHhCCCeEEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVAL--------ASKCQLKVGLLD   68 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~l--------a~~~g~~VlliD   68 (295)
                      ++++++..|+||||+.+.+...+        .. .+.+++++-
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~-~~~~il~~~   60 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSAD-RGKKILVVS   60 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCC-CSS-EEEEE
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhh-ccccceeec
Confidence            67788899999999999999998        45 788888873

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=94.68  E-value=0.052  Score=45.00  Aligned_cols=39  Identities=36%  Similarity=0.377  Sum_probs=30.7

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHh-CCCeEEEEEeCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASK-CQLKVGLLDADVYG   73 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~-~g~~VlliD~D~~~   73 (295)
                      |+| ++..|+||||++..|+..|... .+.+|.+|.+|...
T Consensus         2 igI-~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~   41 (220)
T cd02025           2 IGI-AGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFL   41 (220)
T ss_pred             EEe-eCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCccc
Confidence            556 4889999999999999998741 35678888888654

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.66  E-value=0.035  Score=43.10  Aligned_cols=28  Identities=46%  Similarity=0.522  Sum_probs=20.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEE
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVG   65 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vl   65 (295)
                      +|+| |++.|+||||+|..||-.    .|.+.+
T Consensus         2 ~ItI-sG~pGsG~TTva~~lAe~----~gl~~v   29 (179)
T COG1102           2 VITI-SGLPGSGKTTVARELAEH----LGLKLV   29 (179)
T ss_pred             EEEe-ccCCCCChhHHHHHHHHH----hCCcee
Confidence            3444 899999999999866544    455553

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=94.65  E-value=0.4  Score=38.79  Aligned_cols=67  Identities=10%  Similarity=0.039  Sum_probs=36.2

Q ss_pred             CCccEEEEcCCCCCCccc----hh-------hhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC-C---CCeeeEEecc
Q 022525          138 GNLDILVIDMPPGTGDAQ----LT-------TTQTLQLSGALIVSTPQDVALIDARKGITMFSKV-Q---VPILGLVENM  202 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~----~~-------~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~-~---~~~~~~ViN~  202 (295)
                      .+..++|||||+-.+...    +.       .......|.+++|...+... ..-...++.+.+. +   .....+|+|+
T Consensus        47 ~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~~t-~~d~~~l~~l~~~fg~~~~~~~ivv~T~  125 (196)
T cd01852          47 DGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGRFT-EEEEQAVETLQELFGEKVLDHTIVLFTR  125 (196)
T ss_pred             CCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCCcC-HHHHHHHHHHHHHhChHhHhcEEEEEEC
Confidence            356789999985333210    00       00112457788887766533 3334555555542 3   2345588888


Q ss_pred             ccC
Q 022525          203 SCF  205 (295)
Q Consensus       203 ~~~  205 (295)
                      .+.
T Consensus       126 ~d~  128 (196)
T cd01852         126 GDD  128 (196)
T ss_pred             ccc
Confidence            773

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=94.61  E-value=0.081  Score=34.99  Aligned_cols=32  Identities=47%  Similarity=0.546  Sum_probs=25.6

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      |++ .+.-|+||||++..|+..|   .+.++.++|-
T Consensus         2 i~i-~G~~gsGKst~~~~l~~~l---~~~~~~~i~~   33 (69)
T cd02019           2 IAI-TGGSGSGKSTVAKKLAEQL---GGRSVVVLDE   33 (69)
T ss_pred             EEE-ECCCCCCHHHHHHHHHHHh---cCCCEEEEeE
Confidence            444 4888999999999999988   3667777765

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PRK06321 replicative DNA helicase; Provisional

Probab=94.59  E-value=0.064  Score=49.71  Aligned_cols=42  Identities=19%  Similarity=0.368  Sum_probs=34.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.+.++..|+|||+++.++|..+|.+.|++|+++.+.-..
T Consensus       226 G~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSLEMs~  267 (472)
T PRK06321        226 SNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTV  267 (472)
T ss_pred             CcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCH
Confidence            345566799999999999999999995369999999887644

>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown

Probab=94.56  E-value=0.067  Score=44.49  Aligned_cols=41  Identities=32%  Similarity=0.239  Sum_probs=35.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~~~   73 (295)
                      .+-++|. +.-|+|||+++..|...+. + .|.+++++|..-..
T Consensus        23 ~~H~~I~-G~TGsGKS~~~~~ll~~l~~~-~~~~~ii~D~~GEY   64 (229)
T PF01935_consen   23 NRHIAIF-GTTGSGKSNTVKVLLEELLKK-KGAKVIIFDPHGEY   64 (229)
T ss_pred             cceEEEE-CCCCCCHHHHHHHHHHHHHhc-CCCCEEEEcCCCcc
Confidence            4677777 8889999999999999999 7 89999999876544

It contains several conserved aspartates and histidines that could be metal ligands.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.55  E-value=0.081  Score=44.12  Aligned_cols=40  Identities=25%  Similarity=0.347  Sum_probs=32.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEE-EEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGL-LDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vll-iD~D~~   72 (295)
                      +.+|+| ++..|+||||++..|+..+.. .+..+.+ |.+|..
T Consensus        33 ~~iigi-~G~~GsGKTTl~~~L~~~l~~-~~g~~~v~i~~D~~   73 (229)
T PRK09270         33 RTIVGI-AGPPGAGKSTLAEFLEALLQQ-DGELPAIQVPMDGF   73 (229)
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHHhhh-ccCCceEEEecccc
Confidence            467777 499999999999999999998 7776655 777653

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=94.51  E-value=0.41  Score=38.30  Aligned_cols=67  Identities=12%  Similarity=0.015  Sum_probs=41.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHH-HHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDA-RKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~-~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+-|.||++.-....+.......+|.++++.+.+. .++..+ ...++.+.+.  +.++ .+|.|+.|.
T Consensus        51 ~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~pi-ilVgNK~DL  121 (182)
T cd04172          51 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKM-LLVGCKSDL  121 (182)
T ss_pred             EEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCE-EEEeEChhh
Confidence            45678899998643221222333456888888877544 566665 4555555442  3444 489999985

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>PLN02924 thymidylate kinase

Probab=94.49  E-value=0.09  Score=43.56  Aligned_cols=39  Identities=23%  Similarity=0.274  Sum_probs=33.1

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +++++.|+|- +--|+||||.+..|+..|.. .|.+|.++.
T Consensus        13 ~~~g~~IviE-GiDGsGKsTq~~~L~~~l~~-~g~~v~~~~   51 (220)
T PLN02924         13 ESRGALIVLE-GLDRSGKSTQCAKLVSFLKG-LGVAAELWR   51 (220)
T ss_pred             CCCCeEEEEE-CCCCCCHHHHHHHHHHHHHh-cCCCceeee
Confidence            4557788885 88899999999999999999 999986653

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=94.48  E-value=0.074  Score=43.25  Aligned_cols=33  Identities=36%  Similarity=0.401  Sum_probs=26.9

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +.++.+..|+||||+...+...+.. .|.+|+++
T Consensus        20 ~~~l~G~aGtGKT~~l~~~~~~~~~-~g~~v~~~   52 (196)
T PF13604_consen   20 VSVLQGPAGTGKTTLLKALAEALEA-AGKRVIGL   52 (196)
T ss_dssp             EEEEEESTTSTHHHHHHHHHHHHHH-TT--EEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHh-CCCeEEEE
Confidence            4444577999999999999999999 89999988

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=94.46  E-value=0.062  Score=45.97  Aligned_cols=35  Identities=26%  Similarity=0.250  Sum_probs=26.4

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .++++-.|+||||+|..|...|.. .+.+|.+|+-|
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~-~~~~v~~i~~~   38 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEE-KGKEVVIISDD   38 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHH-TT--EEEE-TH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHh-cCCEEEEEccc
Confidence            344689999999999999999999 99999999844

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.46  E-value=0.096  Score=45.96  Aligned_cols=41  Identities=22%  Similarity=0.105  Sum_probs=29.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH--hCC---CeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS--KCQ---LKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~--~~g---~~VlliD~D~~   72 (295)
                      -.|....+..|+||||++..++...+.  ..|   .+|+.||....
T Consensus        96 g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~  141 (316)
T TIGR02239        96 GSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGT  141 (316)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCC
Confidence            344444579999999999999874432  123   48999998764

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=94.45  E-value=0.053  Score=45.26  Aligned_cols=40  Identities=23%  Similarity=0.246  Sum_probs=31.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC------CCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC------QLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~------g~~VlliD~D~~   72 (295)
                      +.++.+ .+..|+|||+++.+++..... .      +.+|+.||.+..
T Consensus        19 g~i~~i-~G~~GsGKT~l~~~l~~~~~~-~~~~~g~~~~viyi~~e~~   64 (235)
T cd01123          19 GSITEI-FGEFGSGKTQLCHQLAVTVQL-PIELGGLEGKAVYIDTEGT   64 (235)
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHeeC-ccccCCCCccEEEEeCCCC
Confidence            456655 588999999999999987654 4      379999999864

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK08116 hypothetical protein; Validated

Probab=94.45  E-value=0.067  Score=45.80  Aligned_cols=34  Identities=24%  Similarity=0.211  Sum_probs=29.7

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      .+..+..|+|||.++..++..+.+ .|.+|+++++
T Consensus       117 l~l~G~~GtGKThLa~aia~~l~~-~~~~v~~~~~  150 (268)
T PRK08116        117 LLLWGSVGTGKTYLAACIANELIE-KGVPVIFVNF  150 (268)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEEH
Confidence            344578999999999999999999 8999999964

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=94.42  E-value=0.49  Score=39.26  Aligned_cols=67  Identities=10%  Similarity=-0.028  Sum_probs=40.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHH-HHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGIT-MFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~-~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.||++......+.......+|.++++.+... .+++.+...+. .+..  .+.++ .+|.|+.|.
T Consensus        47 ~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~pi-iLVgnK~DL  117 (222)
T cd04173          47 RRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKV-VLVGCKLDM  117 (222)
T ss_pred             EEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCE-EEEEECccc
Confidence            45778899998643322222333457898888877655 46666643332 2322  34455 489999985

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>PRK08084 DNA replication initiation factor; Provisional

Probab=94.42  E-value=0.07  Score=44.73  Aligned_cols=36  Identities=19%  Similarity=0.194  Sum_probs=31.7

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+..+.-|+|||+++..++..+.+ .|.+|.++.++.
T Consensus        48 l~l~Gp~G~GKThLl~a~~~~~~~-~~~~v~y~~~~~   83 (235)
T PRK08084         48 IYLWSREGAGRSHLLHAACAELSQ-RGRAVGYVPLDK   83 (235)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEEHHH
Confidence            344589999999999999999999 899999998874

>PLN02759 Formate--tetrahydrofolate ligase

Probab=94.37  E-value=0.081  Score=49.40  Aligned_cols=69  Identities=26%  Similarity=0.245  Sum_probs=47.8

Q ss_pred             CCeEEEEee---CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCC
Q 022525           30 VKDVIAVAS---GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYG  101 (295)
Q Consensus        30 ~~~vI~i~s---~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~  101 (295)
                      .+|.|.|++   ..-|.||||++..|+.+|.++.|+++++-   ..+|++--.||++....-.-...+.|.+..|
T Consensus        68 ~gklIlVTaitPTP~GEGKTTttIGL~~aL~~~lgk~~~~~---lRePSlGP~FGiKGGAaGGGysQv~Pme~iN  139 (637)
T PLN02759         68 DGYYVVVAGITPTPLGEGKSTTTIGLCQALGAYLDKKVVTC---LRQPSQGPTFGIKGGAAGGGYSQVIPMEEFN  139 (637)
T ss_pred             CCcEEEEEecCCCCCCCCchhHHHHHHHHHHHHhCCeeEEE---eecCCcCCcCCcccccCCCcccccccHhhhc
Confidence            367666554   67899999999999999996579998765   4556766678887754433344444433333

>PRK06851 hypothetical protein; Provisional

Probab=94.36  E-value=0.13  Score=45.83  Aligned_cols=45  Identities=22%  Similarity=0.192  Sum_probs=36.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSV   76 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~   76 (295)
                      .+.+-+..+..|+||||+...++..+.+ +|.+|.+.-|-....++
T Consensus       213 ~~~~~~i~G~pG~GKstl~~~i~~~a~~-~G~~v~~~hC~~dPdsl  257 (367)
T PRK06851        213 VKNRYFLKGRPGTGKSTMLKKIAKAAEE-RGFDVEVYHCGFDPDSL  257 (367)
T ss_pred             cceEEEEeCCCCCcHHHHHHHHHHHHHh-CCCeEEEEeCCCCCCCc
Confidence            3455555688899999999999999999 99999999776554443

>PF05729 NACHT: NACHT domain

Probab=94.35  E-value=0.058  Score=41.98  Aligned_cols=27  Identities=41%  Similarity=0.412  Sum_probs=23.2

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQ   61 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g   61 (295)
                      +.+..+.+|+||||++..++..++. .+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~-~~   28 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAE-EE   28 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHh-cC
Confidence            3455799999999999999999998 54

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=94.34  E-value=0.14  Score=44.79  Aligned_cols=105  Identities=16%  Similarity=0.093  Sum_probs=68.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      +.-+|||.|||+..--.--......-||..|+.+.....-++.+.+.--...-.|++-+.+-+|+.+......  .....
T Consensus        84 ~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLLGIrhvvvAVNKmDLvdy~e--~~F~~  161 (431)
T COG2895          84 EKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASLLGIRHVVVAVNKMDLVDYSE--EVFEA  161 (431)
T ss_pred             ccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHhCCcEEEEEEeeecccccCH--HHHHH
Confidence            5678999999974321111122344678999999988877777777666666689998889999998543321  10000


Q ss_pred             CCchhhHHHHHhCCcEEEeecCCcccc
Q 022525          218 GKGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                      -......+.+.+|......||-+....
T Consensus       162 I~~dy~~fa~~L~~~~~~~IPiSAl~G  188 (431)
T COG2895         162 IVADYLAFAAQLGLKDVRFIPISALLG  188 (431)
T ss_pred             HHHHHHHHHHHcCCCcceEEechhccC
Confidence            012244566677888888999765543

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=94.33  E-value=1.2  Score=39.48  Aligned_cols=39  Identities=15%  Similarity=0.250  Sum_probs=30.1

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPS   75 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~   75 (295)
                      |.+.++==|+||||+--++...  . .|.++.+|-.|...-+
T Consensus         6 v~iltGFLGaGKTTll~~ll~~--~-~~~~iavi~Ne~G~~~   44 (341)
T TIGR02475         6 VTIVTGFLGAGKTTLIRHLLQN--A-AGRRIAVIVNEFGDLG   44 (341)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc--c-CCCcEEEEECCCcccc
Confidence            4555678899999999988753  4 6889999987765533

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=94.33  E-value=0.4  Score=36.78  Aligned_cols=64  Identities=11%  Similarity=0.062  Sum_probs=39.7

Q ss_pred             CccEEEEcCCCCCCccc------hhhhhh--ccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQ------LTTTQT--LQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~------~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+++.++|||+......      +....+  ..+|.++++......  .........+.+.+.+++ +|+|+.+.
T Consensus        42 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~--~~~~~~~~~~~~~~~~~i-iv~NK~Dl  113 (158)
T cd01879          42 GKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNL--ERNLYLTLQLLELGLPVV-VALNMIDE  113 (158)
T ss_pred             CeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcc--hhHHHHHHHHHHcCCCEE-EEEehhhh
Confidence            46799999996433211      112222  278999999887653  222334445555666665 99999995

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=94.32  E-value=0.28  Score=44.37  Aligned_cols=65  Identities=20%  Similarity=0.044  Sum_probs=39.0

Q ss_pred             ccEEEEcCCCCCCcc-------chhhhhhccCceEEEeeCCC----cchHHHHHHHHHHHhcC-----CCCeeeEEeccc
Q 022525          140 LDILVIDMPPGTGDA-------QLTTTQTLQLSGALIVSTPQ----DVALIDARKGITMFSKV-----QVPILGLVENMS  203 (295)
Q Consensus       140 yD~iiiD~~~~~~~~-------~~~~~~l~~ad~viiv~~~~----~~s~~~~~~~~~~l~~~-----~~~~~~~ViN~~  203 (295)
                      ..++++|+|+-....       ...+..+..+|.++.++...    ...+......++.+...     +.+. .+|+|+.
T Consensus       207 ~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~-IlVlNKi  285 (390)
T PRK12298        207 RSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPR-WLVFNKI  285 (390)
T ss_pred             cEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCE-EEEEeCC
Confidence            348999998643211       11223466789999988765    22344445555555542     3344 5899999


Q ss_pred             cC
Q 022525          204 CF  205 (295)
Q Consensus       204 ~~  205 (295)
                      +.
T Consensus       286 Dl  287 (390)
T PRK12298        286 DL  287 (390)
T ss_pred             cc
Confidence            84

>PRK05636 replicative DNA helicase; Provisional

Probab=94.31  E-value=0.082  Score=49.43  Aligned_cols=42  Identities=19%  Similarity=0.283  Sum_probs=34.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.+.++..|+|||+++.++|...|.+.|++|+++.+.-..
T Consensus       265 G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSlEMs~  306 (505)
T PRK05636        265 GQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSK  306 (505)
T ss_pred             CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEeeCCH
Confidence            455566799999999999999999885368999999877643

>PRK09866 hypothetical protein; Provisional

Probab=94.29  E-value=0.13  Score=48.83  Aligned_cols=67  Identities=16%  Similarity=0.052  Sum_probs=43.5

Q ss_pred             CCccEEEEcCCCCCCcc--c----hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCC-CeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA--Q----LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQV-PILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~--~----~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~-~~~~~ViN~~~~  205 (295)
                      ..+.+|++|||+ +...  .    .....+..+|.|+.|+.....--..-....+.+.+.+. ..+.+|+|+++.
T Consensus       228 ~~~QIIFVDTPG-Ihk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl  301 (741)
T PRK09866        228 YPGQLTLLDTPG-PNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVPLYVLVNKFDQ  301 (741)
T ss_pred             ccCCEEEEECCC-CCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCCEEEEEEcccC
Confidence            468899999995 4321  1    23446778999999998875322222345566665552 234599999995

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=94.26  E-value=0.098  Score=41.59  Aligned_cols=40  Identities=23%  Similarity=0.185  Sum_probs=28.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++.+.| .+..|+|||++...+...++. .+.-++.++++..
T Consensus        24 ~~~~ll-~G~~G~GKT~ll~~~~~~~~~-~~~~~~~~~~~~~   63 (185)
T PF13191_consen   24 PRNLLL-TGESGSGKTSLLRALLDRLAE-RGGYVISINCDDS   63 (185)
T ss_dssp             ---EEE--B-TTSSHHHHHHHHHHHHHH-HT--EEEEEEETT
T ss_pred             CcEEEE-ECCCCCCHHHHHHHHHHHHHh-cCCEEEEEEEecc
Confidence            344444 589999999999999999999 5444888888876

>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]

Probab=94.23  E-value=0.18  Score=43.93  Aligned_cols=42  Identities=33%  Similarity=0.450  Sum_probs=36.6

Q ss_pred             CeEEEEeeC-CCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASG-KGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~-kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+||.|.|. -||+|||-++..||..|.+ +|.++.++.-.+-+
T Consensus        47 vPVI~VGNltvGGtGKTP~vi~la~~l~~-rG~~~gvvSRGYgg   89 (336)
T COG1663          47 VPVICVGNLTVGGTGKTPVVIWLAEALQA-RGVRVGVVSRGYGG   89 (336)
T ss_pred             CCEEEEccEEECCCCcCHHHHHHHHHHHh-cCCeeEEEecCcCC
Confidence            477877664 5999999999999999999 99999999887765

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=94.23  E-value=0.06  Score=40.26  Aligned_cols=41  Identities=29%  Similarity=0.254  Sum_probs=30.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhC-----CCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKC-----QLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~-----g~~VlliD~D~~~   73 (295)
                      +.+.+..+..|+|||+++.+++..+.. .     ..+|+.+++....
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   49 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNA-EAEIKNHPDVIYVNCPSSR   49 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHH-HHHHCCCEEEEEEEHHHHS
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHH-hhhccCCCcEEEEEeCCCC
Confidence            344555699999999999999999986 4     6788888777654

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=94.23  E-value=0.1  Score=47.12  Aligned_cols=41  Identities=27%  Similarity=0.242  Sum_probs=34.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +-+|+| ++..|+||||++..|...+.. .|.+|..|..|-..
T Consensus       212 PlIIGI-sG~qGSGKSTLa~~L~~lL~~-~g~~vgvISiDDfY  252 (460)
T PLN03046        212 PLVIGF-SAPQGCGKTTLVFALDYLFRV-TGRKSATLSIDDFY  252 (460)
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHHhcc-cCCceEEEEECCcc
Confidence            456666 588999999999999998888 78899999888654

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=94.23  E-value=0.07  Score=46.70  Aligned_cols=41  Identities=24%  Similarity=0.224  Sum_probs=31.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~~   72 (295)
                      ..|....+..|+|||+++..++...+..     .+.+|+.||+...
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~  140 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENT  140 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCC
Confidence            3455556899999999999999887630     1239999999864

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PF12846 AAA_10: AAA-like domain

Probab=94.22  E-value=0.076  Score=45.80  Aligned_cols=32  Identities=34%  Similarity=0.386  Sum_probs=29.5

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .++-|+||||++.++...+.. .|..++++|..
T Consensus         7 ~G~tGsGKT~~~~~l~~~~~~-~g~~~~i~D~~   38 (304)
T PF12846_consen    7 LGKTGSGKTTLLKNLLEQLIR-RGPRVVIFDPK   38 (304)
T ss_pred             ECCCCCcHHHHHHHHHHHHHH-cCCCEEEEcCC
Confidence            489999999999999999999 99999999655

>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]

Probab=94.19  E-value=0.38  Score=38.38  Aligned_cols=36  Identities=31%  Similarity=0.432  Sum_probs=29.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      +-++.+  .--|=||||-|..+|....- +|.+|++|-+
T Consensus        29 Gli~V~--TG~GKGKTTAAlG~alRa~G-hG~rv~vvQF   64 (198)
T COG2109          29 GLIIVF--TGNGKGKTTAALGLALRALG-HGLRVGVVQF   64 (198)
T ss_pred             CeEEEE--ecCCCChhHHHHHHHHHHhc-CCCEEEEEEE
Confidence            344444  55688999999999999999 9999999954

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.19  E-value=0.073  Score=43.65  Aligned_cols=39  Identities=33%  Similarity=0.424  Sum_probs=31.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ..+|+| ++-+|+||||+|..|...|.. .  +|.+|-.|.-.
T Consensus         8 ~iiIgI-aG~SgSGKTTva~~l~~~~~~-~--~~~~I~~D~YY   46 (218)
T COG0572           8 VIIIGI-AGGSGSGKTTVAKELSEQLGV-E--KVVVISLDDYY   46 (218)
T ss_pred             eEEEEE-eCCCCCCHHHHHHHHHHHhCc-C--cceEeeccccc
Confidence            357777 577889999999999988876 3  88899888655

>PRK09165 replicative DNA helicase; Provisional

Probab=94.18  E-value=0.079  Score=49.53  Aligned_cols=42  Identities=21%  Similarity=0.337  Sum_probs=33.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHh--------------CCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASK--------------CQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~--------------~g~~VlliD~D~~~   73 (295)
                      .-+.+.++..|+||||++.++|...|..              .|.+|+++.+.-..
T Consensus       217 g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~  272 (497)
T PRK09165        217 SDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSA  272 (497)
T ss_pred             CceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCH
Confidence            3456668999999999999999999862              27889999877654

>PRK06217 hypothetical protein; Validated

Probab=94.17  E-value=0.054  Score=43.46  Aligned_cols=32  Identities=34%  Similarity=0.491  Sum_probs=22.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .|.|+ +-.|+||||++..|+..+    |..  .+|+|.
T Consensus         3 ~I~i~-G~~GsGKSTla~~L~~~l----~~~--~~~~D~   34 (183)
T PRK06217          3 RIHIT-GASGSGTTTLGAALAERL----DIP--HLDTDD   34 (183)
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHc----CCc--EEEcCc
Confidence            34453 789999999999888544    444  577774

>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]

Probab=94.16  E-value=0.13  Score=50.43  Aligned_cols=37  Identities=32%  Similarity=0.241  Sum_probs=32.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      +=.+++=+-.|+||||+-+.|-..|.- .|++||+.-.
T Consensus       685 edy~LI~GMPGTGKTTtI~~LIkiL~~-~gkkVLLtsy  721 (1100)
T KOG1805|consen  685 EDYALILGMPGTGKTTTISLLIKILVA-LGKKVLLTSY  721 (1100)
T ss_pred             cchheeecCCCCCchhhHHHHHHHHHH-cCCeEEEEeh
Confidence            455666688999999999999999999 9999999853

>KOG3220 consensus Similar to bacterial dephospho-CoA kinase [Coenzyme transport and metabolism]

Probab=94.15  E-value=0.068  Score=43.01  Aligned_cols=46  Identities=9%  Similarity=0.182  Sum_probs=29.4

Q ss_pred             HHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc
Q 022525          125 MSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV  176 (295)
Q Consensus       125 ~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~  176 (295)
                      ...+++++..+. .+|-+||+|.|--+.     ...+..+..+++|+-+...
T Consensus        93 ~em~ke~~~~~l-~G~r~ivlDiPLLFE-----~~~~~~~~~tvvV~cd~~~  138 (225)
T KOG3220|consen   93 KEMFKEILKLLL-RGYRVIVLDIPLLFE-----AKLLKICHKTVVVTCDEEL  138 (225)
T ss_pred             HHHHHHHHHHHh-cCCeEEEEechHHHH-----HhHHhheeeEEEEEECcHH
Confidence            455666777776 899999999994222     2233456666666555443

>PRK13507 formate--tetrahydrofolate ligase; Provisional

Probab=94.12  E-value=0.069  Score=49.43  Aligned_cols=68  Identities=25%  Similarity=0.223  Sum_probs=48.3

Q ss_pred             CCeEEEEee---CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCC
Q 022525           30 VKDVIAVAS---GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYG  101 (295)
Q Consensus        30 ~~~vI~i~s---~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~  101 (295)
                      .+|.|.|++   ..-|.||||++..|+.+|.+ .|+++++.   ..+|++--.||++....-.-...+.|.+..|
T Consensus        62 ~gklIlVTaitPTP~GEGKtTttIGL~~aL~~-lgk~~~~~---lRePSlGP~FGiKGGAaGGGysQv~Pme~iN  132 (587)
T PRK13507         62 DGKYIDVTAITPTPLGEGKSTTTMGLVQGLGK-RGKKVSGA---IRQPSGGPTMNIKGSAAGGGLSQCIPLTPFS  132 (587)
T ss_pred             CCeEEEEeccCCCCCCCCccchhhhHHHHHHh-hcCceEEE---EecCCcCCcCCcccccCCCccccccchhhcc
Confidence            367776655   57799999999999999999 99998765   4456766678887754444444444444333

>PRK06921 hypothetical protein; Provisional

Probab=94.12  E-value=0.088  Score=45.01  Aligned_cols=36  Identities=25%  Similarity=0.242  Sum_probs=30.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEe
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDA   69 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~   69 (295)
                      .-+.++ +.-|+|||+++..+|..+.+ . |.+|+.+.+
T Consensus       118 ~~l~l~-G~~G~GKThLa~aia~~l~~-~~g~~v~y~~~  154 (266)
T PRK06921        118 NSIALL-GQPGSGKTHLLTAAANELMR-KKGVPVLYFPF  154 (266)
T ss_pred             CeEEEE-CCCCCcHHHHHHHHHHHHhh-hcCceEEEEEH
Confidence            445554 67899999999999999998 7 999998864

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=94.10  E-value=0.08  Score=43.23  Aligned_cols=66  Identities=11%  Similarity=0.120  Sum_probs=42.0

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +-+.++|||+...........+..+|.+++|++.... ........+..+...+.+.+.+|+|+.|.
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl  149 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDL  149 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhc
Confidence            6789999997433212233445567999999887752 22233445555555565555589999984

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.09  E-value=0.088  Score=42.74  Aligned_cols=36  Identities=33%  Similarity=0.508  Sum_probs=28.1

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |++ ++..|+||||++..|+..+ .  +.++.++.+|...
T Consensus         2 igi-~G~~GsGKSTl~~~l~~~l-~--~~~~~v~~~D~~~   37 (198)
T cd02023           2 IGI-AGGSGSGKTTVAEEIIEQL-G--NPKVVIISQDSYY   37 (198)
T ss_pred             EEE-ECCCCCCHHHHHHHHHHHh-C--CCCeEEEEecccc
Confidence            555 4779999999999998887 3  4578888888543

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=94.09  E-value=0.62  Score=44.32  Aligned_cols=66  Identities=15%  Similarity=0.145  Sum_probs=46.5

Q ss_pred             cEEEEcCCCCCCcc----chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCC
Q 022525          141 DILVIDMPPGTGDA----QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICP  208 (295)
Q Consensus       141 D~iiiD~~~~~~~~----~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~  208 (295)
                      |++++|.|+ ++.+    .|...-...+|.+|+|+.....-......++....+. -|.+.+|.|++|..+.
T Consensus       207 DivliDsPG-ld~~se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs~~-KpniFIlnnkwDasas  276 (749)
T KOG0448|consen  207 DIVLIDSPG-LDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVSEE-KPNIFILNNKWDASAS  276 (749)
T ss_pred             cceeccCCC-CCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhhcc-CCcEEEEechhhhhcc
Confidence            999999994 4422    3444455578999999998887766666666665544 4555688999985533

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.03  E-value=0.055  Score=42.69  Aligned_cols=33  Identities=36%  Similarity=0.372  Sum_probs=23.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.|.+ .+..|+||||++..||..+.-      .++|.|.
T Consensus         5 ~~i~l-~G~~GsGKstla~~La~~l~~------~~~d~d~   37 (175)
T PRK00131          5 PNIVL-IGFMGAGKSTIGRLLAKRLGY------DFIDTDH   37 (175)
T ss_pred             CeEEE-EcCCCCCHHHHHHHHHHHhCC------CEEEChH
Confidence            44444 589999999999988877633      4456663

>PRK11058 GTPase HflX; Provisional

Probab=94.02  E-value=0.45  Score=43.61  Aligned_cols=64  Identities=20%  Similarity=0.124  Sum_probs=37.5

Q ss_pred             cEEEEcCCCCCCc-c--c-----hhhhhhccCceEEEeeCCCcch-HHHH---HHHHHHHhcCCCCeeeEEeccccC
Q 022525          141 DILVIDMPPGTGD-A--Q-----LTTTQTLQLSGALIVSTPQDVA-LIDA---RKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       141 D~iiiD~~~~~~~-~--~-----~~~~~l~~ad~viiv~~~~~~s-~~~~---~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .++++||++.... .  .     .+......||.+++|.+.+... ....   ...++.+...+.+++ +|+|+.|.
T Consensus       246 ~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvI-iV~NKiDL  321 (426)
T PRK11058        246 ETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTL-LVMNKIDM  321 (426)
T ss_pred             eEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEE-EEEEcccC
Confidence            5788999865332 0  0     1122345689898888876543 2332   234444433345554 99999995

>PF01268 FTHFS: Formate--tetrahydrofolate ligase; InterPro: IPR000559 Formate--tetrahydrofolate ligase (6

Probab=93.95  E-value=0.034  Score=51.45  Aligned_cols=52  Identities=29%  Similarity=0.284  Sum_probs=34.6

Q ss_pred             CCeEEEEee---CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC
Q 022525           30 VKDVIAVAS---GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK   85 (295)
Q Consensus        30 ~~~vI~i~s---~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~   85 (295)
                      .+|.|.|++   ..-|.||||++..|+.+|.+ .|+++.+.   ..+|++--.||++..
T Consensus        53 ~gklilVTaitPTp~GEGKtTttiGL~~al~~-lg~~~~~~---lRePSlGP~fG~KGG  107 (557)
T PF01268_consen   53 DGKLILVTAITPTPAGEGKTTTTIGLAQALNR-LGKKAIAA---LREPSLGPVFGIKGG  107 (557)
T ss_dssp             --EEEEEEESS--TTS-SHHHHHHHHHHHHHH-TT--EEEE---E----CHHHHCST-S
T ss_pred             CCcEEEEEecCCCCCCCCceeHHHHHHHHHHh-cCCceEEE---EecCCCCCccCcccc
Confidence            478777765   56799999999999999999 99998765   456777777888864

3.4.3 from EC) (formyltetrahydrofolate synthetase) (FTHFS) is one of the enzymes participating in the transfer of one-carbon units, an essential element of various biosynthetic pathways. In many of these processes the transfers of one-carbon units are mediated by the coenzyme tetrahydrofolate (THF). In eukaryotes the FTHFS activity is expressed by a multifunctional enzyme, C-1-tetrahydrofolate synthase (C1-THF synthase), which also catalyses the dehydrogenase and cyclohydrolase activities. Two forms of C1-THF synthases are known [], one is located in the mitochondrial matrix, while the second one is cytoplasmic. In both forms the FTHFS domain consists of about 600 amino acid residues and is located in the C-terminal section of C1-THF synthase. In prokaryotes FTHFS activity is expressed by a monofunctional homotetrameric enzyme of about 560 amino acid residues []. The crystal structure of N(10)-formyltetrahydrofolate synthetase from Moorella thermoacetica shows that the subunit is composed of three domains organised around three mixed beta-sheets. There are two cavities between adjacent domains. One of them was identified as the nucleotide binding site by homology modelling. The large domain contains a seven-stranded beta-sheet surrounded by helices on both sides. The second domain contains a five-stranded beta-sheet with two alpha-helices packed on one side while the other two are a wall of the active site cavity. The third domain contains a four-stranded beta-sheet forming a half-barrel. The concave side is covered by two helices while the convex side is another wall of the large cavity. Arg 97 is likely involved in formyl phosphate binding. The tetrameric molecule is relatively flat with the shape of the letter X, and the active sites are located at the end of the subunits far from the subunit interface [].; GO: 0004329 formate-tetrahydrofolate ligase activity, 0005524 ATP binding, 0009396 folic acid-containing compound biosynthetic process; PDB: 2EO2_A 3DO6_B 1FPM_A 3RBO_A 3PZX_B 3QB6_A 1FP7_A 3SIN_B 1EG7_A 3QUS_A ....

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=93.94  E-value=0.18  Score=46.38  Aligned_cols=65  Identities=18%  Similarity=0.084  Sum_probs=38.2

Q ss_pred             CCccEEEEcCCCCCCcc-ch-------hhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA-QL-------TTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-~~-------~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +++.+.|+|||+-.... .+       ....+..+|.+++|.+.+.. +....  .+..+...+.+++ +|+||.|.
T Consensus       249 ~g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~~~~piI-lV~NK~Dl  322 (442)
T TIGR00450       249 NGILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF--LIIDLNKSKKPFI-LVLNKIDL  322 (442)
T ss_pred             CCEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH--HHHHHhhCCCCEE-EEEECccC
Confidence            44667899998532211 11       12345578999988776543 33332  4444444455654 99999985

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>PLN02796 D-glycerate 3-kinase

Probab=93.93  E-value=0.11  Score=45.78  Aligned_cols=41  Identities=22%  Similarity=0.279  Sum_probs=33.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +-+|+|. +..|+||||++..|...+.. .|.++..|-.|-..
T Consensus       100 pliIGI~-G~sGSGKSTLa~~L~~lL~~-~g~~~g~IsiDdfY  140 (347)
T PLN02796        100 PLVIGIS-APQGCGKTTLVFALVYLFNA-TGRRAASLSIDDFY  140 (347)
T ss_pred             CEEEEEE-CCCCCcHHHHHHHHHHHhcc-cCCceeEEEECCcc
Confidence            4566664 88999999999999999988 78888888777543

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=93.88  E-value=0.3  Score=45.16  Aligned_cols=66  Identities=11%  Similarity=0.045  Sum_probs=37.7

Q ss_pred             CCccEEEEcCCCCCCccc--------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQ--------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~--------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      +++.+.|+|||+......        .+...+..+|.+++|.+.+......-...+..  ..+.++ .+|+||.|..
T Consensus       261 ~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~--~~~~pi-iiV~NK~DL~  334 (449)
T PRK05291        261 DGIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE--LKDKPV-IVVLNKADLT  334 (449)
T ss_pred             CCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh--cCCCCc-EEEEEhhhcc
Confidence            456689999995322111        02234557899999988765422222222222  234454 4999999853

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=93.83  E-value=0.13  Score=41.34  Aligned_cols=35  Identities=31%  Similarity=0.305  Sum_probs=29.5

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      +|+|. +--|+||||++..|+..|.. .|.+|..+..
T Consensus         2 ~I~ie-G~~GsGKtT~~~~L~~~l~~-~g~~v~~~~~   36 (200)
T cd01672           2 FIVFE-GIDGAGKTTLIELLAERLEA-RGYEVVLTRE   36 (200)
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEEeC
Confidence            45554 78899999999999999998 9999976644

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK07004 replicative DNA helicase; Provisional

Probab=93.83  E-value=0.096  Score=48.47  Aligned_cols=42  Identities=19%  Similarity=0.407  Sum_probs=34.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.+.++..|+|||+++.++|..+|...|++|+++.+.-..
T Consensus       213 g~liviaarpg~GKT~~al~ia~~~a~~~~~~v~~fSlEM~~  254 (460)
T PRK07004        213 GELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMPG  254 (460)
T ss_pred             CceEEEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEeCCCCH
Confidence            345566799999999999999999885379999999877654

>PRK06761 hypothetical protein; Provisional

Probab=93.81  E-value=0.099  Score=44.90  Aligned_cols=39  Identities=36%  Similarity=0.499  Sum_probs=30.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEE-EEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGL-LDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vll-iD~D~   71 (295)
                      .++|.| .+..|+||||++..|+..|.. .|.++.. .+.|.
T Consensus         3 ~~lIvI-~G~~GsGKTTla~~L~~~L~~-~g~~v~~~~~~~~   42 (282)
T PRK06761          3 TKLIII-EGLPGFGKSTTAKMLNDILSQ-NGIEVELYLEGNL   42 (282)
T ss_pred             CcEEEE-ECCCCCCHHHHHHHHHHhcCc-CceEEEEEecCCC
Confidence            355555 567889999999999999988 8888865 45454

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=93.77  E-value=0.097  Score=45.99  Aligned_cols=40  Identities=25%  Similarity=0.213  Sum_probs=31.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhC------CCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKC------QLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~------g~~VlliD~D~~   72 (295)
                      ..|....+..|+|||+++.++++..+. .      +.+|++||++..
T Consensus       102 g~vtei~G~~GsGKT~l~~~~~~~~~~-~~~~gg~~~~~~yi~te~~  147 (317)
T PRK04301        102 QSITEFYGEFGSGKTQICHQLAVNVQL-PEEKGGLEGKAVYIDTEGT  147 (317)
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHhcc-ccccCCCCceEEEEeCCCC
Confidence            344555689999999999999988765 3      349999999864

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=93.77  E-value=0.09  Score=48.88  Aligned_cols=68  Identities=12%  Similarity=0.075  Sum_probs=45.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++++|||+...........+..+|.+++|+.....-...+.+.+..+...+.+.+.+++|++|.
T Consensus       105 ~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg~~~iIvvvNKiD~  172 (474)
T PRK05124        105 EKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIKHLVVAVNKMDL  172 (474)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHhCCCceEEEEEeecc
Confidence            56789999999743321223445678899999988766433334445555555666666689999995

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=93.74  E-value=0.093  Score=45.11  Aligned_cols=42  Identities=31%  Similarity=0.379  Sum_probs=29.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCC-eEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQL-KVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~-~VlliD~D~~~   73 (295)
                      .++|+|+ +-||+||||+|..++........+ .++-|++....
T Consensus        19 ~~~v~I~-G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~   61 (287)
T PF00931_consen   19 VRVVAIV-GMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNP   61 (287)
T ss_dssp             SEEEEEE-ESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-S
T ss_pred             eEEEEEE-cCCcCCcceeeeeccccccccccccccccccccccc
Confidence            4777775 889999999999999875541222 46667776543

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PLN03210 Resistant to P

Probab=93.72  E-value=0.12  Score=53.55  Aligned_cols=36  Identities=25%  Similarity=0.339  Sum_probs=28.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      .++|+|+ +.||+||||+|..++..++. .-.-.+.+|
T Consensus       207 ~~vvgI~-G~gGiGKTTLA~~l~~~l~~-~F~g~vfv~  242 (1153)
T PLN03210        207 VRMVGIW-GSSGIGKTTIARALFSRLSR-QFQSSVFID  242 (1153)
T ss_pred             eEEEEEE-cCCCCchHHHHHHHHHHHhh-cCCeEEEee
Confidence            6889887 88999999999999988877 433334454

syringae 6; Provisional

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=93.68  E-value=0.061  Score=41.45  Aligned_cols=33  Identities=36%  Similarity=0.415  Sum_probs=24.2

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+..+..|+||||++..|+..+    +  ..++|.|.-.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~----~--~~~i~~D~~~   34 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL----G--APFIDGDDLH   34 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc----C--CEEEeCcccc
Confidence            3556999999999999887653    2  2567877654

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=93.67  E-value=1.4  Score=38.66  Aligned_cols=141  Identities=17%  Similarity=0.133  Sum_probs=72.5

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccCCC
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSS  114 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (295)
                      .+.++==|+||||+-.+|-   ++..|+|+.+|=-+...-++.      .       ..........+.-++        
T Consensus         4 tvitGFLGsGKTTlL~~lL---~~~~g~kiAVIVNEfGEvgID------~-------~~~l~~~~e~~~El~--------   59 (323)
T COG0523           4 TVITGFLGSGKTTLLNHLL---ANRDGKKIAVIVNEFGEVGID------G-------GALLSDTGEEVVELT--------   59 (323)
T ss_pred             EEEeecCCCCHHHHHHHHH---hccCCCcEEEEEecCcccccc------C-------CCccccCCccEEEeC--------
Confidence            4445556899999988764   443588998886665442222      1       000000111111111        


Q ss_pred             CCCccC--CchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh--------hhhhccCceEEEeeCCCcchHHH---H
Q 022525          115 SPVVWR--GPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT--------TTQTLQLSGALIVSTPQDVALID---A  181 (295)
Q Consensus       115 ~~~~~~--~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~--------~~~l~~ad~viiv~~~~~~s~~~---~  181 (295)
                      ..+.|.  .......+..+.+ .+ +.+|+|||.+.+-..+....        +.....-|.+|-++.+..+.-..   .
T Consensus        60 nGCICCT~r~dl~~~~~~L~~-~~-~~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~  137 (323)
T COG0523          60 NGCICCTVRDDLLPALERLLR-RR-DRPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIA  137 (323)
T ss_pred             CceEEEeccchhHHHHHHHHh-cc-CCCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHH
Confidence            122221  1234566677777 55 77999999999544431111        11112335567777766653211   1


Q ss_pred             HHHHHHHhcCCCCeeeEEeccccC
Q 022525          182 RKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       182 ~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+++.-.+    .+|+||.+.
T Consensus       138 ~~~~~Qia~AD----~ivlNK~Dl  157 (323)
T COG0523         138 ELAEDQLAFAD----VIVLNKTDL  157 (323)
T ss_pred             HHHHHHHHhCc----EEEEecccC
Confidence            23333433232    389999984

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=93.64  E-value=0.2  Score=45.09  Aligned_cols=39  Identities=28%  Similarity=0.311  Sum_probs=33.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|+|+ +..|+||||++..|...|.. + .+|.+|..+..
T Consensus         5 ~~~i~i~-G~~gsGKTTl~~~l~~~l~~-~-~~V~~ik~~~~   43 (369)
T PRK14490          5 PFEIAFC-GYSGSGKTTLITALVRRLSE-R-FSVGYYKHGCH   43 (369)
T ss_pred             CEEEEEE-eCCCCCHHHHHHHHHHHHhh-C-ceEEEEEeCCC
Confidence            5788887 55899999999999999999 8 99999986543

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=93.59  E-value=0.6  Score=38.71  Aligned_cols=33  Identities=33%  Similarity=0.429  Sum_probs=28.5

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHh----CCCeEEEEEeC
Q 022525           38 SGKGGVGKSTTAVNLAVALASK----CQLKVGLLDAD   70 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~----~g~~VlliD~D   70 (295)
                      =+..||||||+-..+|..++.-    .++||++||--
T Consensus       143 igpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDer  179 (308)
T COG3854         143 IGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDER  179 (308)
T ss_pred             ecCCCCChHHHHHHHHHHhhccccccCCceEEEEecc
Confidence            3889999999999999999963    47999999754

>TIGR00235 udk uridine kinase

Probab=93.59  E-value=0.12  Score=42.42  Aligned_cols=37  Identities=27%  Similarity=0.445  Sum_probs=27.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|+|. +..|+||||++..|+..+..   ..+.++..|.
T Consensus         6 g~vi~I~-G~sGsGKSTl~~~l~~~l~~---~~~~~i~~D~   42 (207)
T TIGR00235         6 GIIIGIG-GGSGSGKTTVARKIYEQLGK---LEIVIISQDN   42 (207)
T ss_pred             eEEEEEE-CCCCCCHHHHHHHHHHHhcc---cCCeEecccc
Confidence            5777775 89999999999999877653   3455565554

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>COG2229 Predicted GTPase [General function prediction only]

Probab=93.57  E-value=2.5  Score=33.57  Aligned_cols=69  Identities=9%  Similarity=0.037  Sum_probs=45.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      +++.+-++|+|+......+-......+...|+++.....--..+..+++.+.......+.+.+|+.+..
T Consensus        66 ~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip~vVa~NK~DL~  134 (187)
T COG2229          66 EDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVVVAINKQDLF  134 (187)
T ss_pred             CcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCCEEEEeeccccC
Confidence            557888999997654323333334456766666665554444788888888876633445999998843

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=93.56  E-value=0.14  Score=45.65  Aligned_cols=69  Identities=16%  Similarity=0.139  Sum_probs=48.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH------H-HHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI------D-ARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~------~-~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      +.|.+.|+|||+.-+..--.+.....||..|+|+......++      + +...+-..+..|+..+.+.+|+.|..
T Consensus        83 ~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v  158 (428)
T COG5256          83 DKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLV  158 (428)
T ss_pred             CCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEccccc
Confidence            778899999997444322345566678999999888877433      2 23333444557888888999999853

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=93.55  E-value=0.081  Score=44.16  Aligned_cols=27  Identities=44%  Similarity=0.528  Sum_probs=22.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..|.+.++-.||||||+|..+|..|.-
T Consensus        89 p~IILIGGasGVGkStIA~ElA~rLgI  115 (299)
T COG2074          89 PLIILIGGASGVGKSTIAGELARRLGI  115 (299)
T ss_pred             CeEEEecCCCCCChhHHHHHHHHHcCC
Confidence            577777999999999999988876653

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=93.53  E-value=0.053  Score=41.27  Aligned_cols=32  Identities=31%  Similarity=0.359  Sum_probs=23.5

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.++.+..|+||||++..|+..    .|  ..+||.|.
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~----~~--~~~i~~D~   32 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKR----LG--AVVISQDE   32 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH----ST--EEEEEHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH----CC--CEEEeHHH
Confidence            3456799999999998876543    44  46688886

...

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=93.51  E-value=0.27  Score=45.56  Aligned_cols=68  Identities=15%  Similarity=0.078  Sum_probs=52.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ..|-+=+||||+..+.+.-....+.+||.+++++.+.+.-...+....-..-+.++.++ .|+|+++.+
T Consensus       123 ~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iI-pVlNKIDlp  190 (650)
T KOG0462|consen  123 QSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEAGLAII-PVLNKIDLP  190 (650)
T ss_pred             CceEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHcCCeEE-EeeeccCCC
Confidence            56889999999988766555566778999999999988766666555444455777776 999999954

>PLN02200 adenylate kinase family protein

Probab=93.51  E-value=0.13  Score=43.15  Aligned_cols=35  Identities=17%  Similarity=0.236  Sum_probs=23.8

Q ss_pred             CCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           22 SKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        22 ~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      ..+..+......+.++.+..|+||||+|..||..+
T Consensus        33 ~~~~~~~~~~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         33 ERGSSSKEKTPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             cccCCccCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            33333333334566667999999999999887543

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=93.47  E-value=0.11  Score=48.96  Aligned_cols=66  Identities=17%  Similarity=0.192  Sum_probs=57.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEecccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~  204 (295)
                      +.|=+-|+|||+..+...-+...+..+|.+++++.....-+..+.+.++..-+.+.++. +|+|+++
T Consensus       195 KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq~~~~i~-vviNKiD  260 (971)
T KOG0468|consen  195 KSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQNRLPIV-VVINKVD  260 (971)
T ss_pred             ceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHHhccCcEE-EEEehhH
Confidence            67888999999988876667788888999999999999889999999999888887775 9999987

>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]

Probab=93.44  E-value=0.54  Score=38.71  Aligned_cols=32  Identities=44%  Similarity=0.446  Sum_probs=25.8

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCe--EEEEE
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLK--VGLLD   68 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~--VlliD   68 (295)
                      ++++-.-.||||-|.+|..+|+. +|.|  |.++|
T Consensus         5 vi~G~P~SGKstrA~~L~~~l~~-~~~K~~v~ii~   38 (281)
T KOG3062|consen    5 VICGLPCSGKSTRAVELREALKE-RGTKQSVRIID   38 (281)
T ss_pred             EEeCCCCCCchhHHHHHHHHHHh-hcccceEEEec
Confidence            44578889999999999999999 8854  55553

>PTZ00301 uridine kinase; Provisional

Probab=93.43  E-value=0.19  Score=41.26  Aligned_cols=42  Identities=33%  Similarity=0.593  Sum_probs=30.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCC-eEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQL-KVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~-~VlliD~D~~~   73 (295)
                      ..+|+| ++-.|+||||+|..|+..+....|- .|+++-.|...
T Consensus         3 ~~iIgI-aG~SgSGKTTla~~l~~~l~~~~~~~~~~vi~~D~yy   45 (210)
T PTZ00301          3 CTVIGI-SGASGSGKSSLSTNIVSELMAHCGPVSIGVICEDFYY   45 (210)
T ss_pred             CEEEEE-ECCCcCCHHHHHHHHHHHHHhhcCCCeEEEeCCCCCc
Confidence            367777 5788999999999999888541453 45577666543

>cd01131 PilT Pilus retraction ATPase PilT

Probab=93.42  E-value=1.4  Score=35.72  Aligned_cols=34  Identities=21%  Similarity=0.283  Sum_probs=25.4

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      .++++..|+||||+...|...+....+.+++.++
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e   37 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE   37 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence            4556899999999999988888761345666554

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PF13173 AAA_14: AAA domain

Probab=93.39  E-value=0.13  Score=38.49  Aligned_cols=39  Identities=28%  Similarity=0.305  Sum_probs=30.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +++.+. +.-||||||++.+++..+.  ...+++.+|+|-..
T Consensus         3 ~~~~l~-G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~   41 (128)
T PF13173_consen    3 KIIILT-GPRGVGKTTLLKQLAKDLL--PPENILYINFDDPR   41 (128)
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHhc--ccccceeeccCCHH
Confidence            555664 6778999999999988776  24588999988543

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=93.30  E-value=0.1  Score=41.14  Aligned_cols=35  Identities=31%  Similarity=0.522  Sum_probs=25.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++.|.++ +-.|+||||++..||..+    |.  -++|.|..
T Consensus         2 ~~~i~~~-G~~GsGKst~~~~la~~l----g~--~~~d~D~~   36 (171)
T PRK03731          2 TQPLFLV-GARGCGKTTVGMALAQAL----GY--RFVDTDQW   36 (171)
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHh----CC--CEEEccHH
Confidence            3556664 889999999999887665    33  35687753

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=93.27  E-value=0.28  Score=42.19  Aligned_cols=111  Identities=19%  Similarity=0.173  Sum_probs=64.8

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccccC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVP  112 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (295)
                      -|++. +-..|||||++-+      . -|.||..+....+. ..+..+|+-.                            
T Consensus        74 ~vavI-G~PNvGKStLtN~------m-ig~kv~~vS~K~~T-Tr~~ilgi~t----------------------------  116 (379)
T KOG1423|consen   74 YVAVI-GAPNVGKSTLTNQ------M-IGQKVSAVSRKVHT-TRHRILGIIT----------------------------  116 (379)
T ss_pred             EEEEE-cCCCcchhhhhhH------h-hCCccccccccccc-eeeeeeEEEe----------------------------
Confidence            45555 7789999999984      4 68899888766654 3333333210                            


Q ss_pred             CCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc------------hhhhhhccCceEEEeeCCCcchHHH
Q 022525          113 SSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ------------LTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~------------~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                                              ..++.+|++|||+-++...            -...++..||.++++.+.....-.-
T Consensus       117 ------------------------s~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l  172 (379)
T KOG1423|consen  117 ------------------------SGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPL  172 (379)
T ss_pred             ------------------------cCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCcc
Confidence                                    1667788888887554321            1223455789888888777422111


Q ss_pred             HHHHHHHHhcC-CCCeeeEEeccccC
Q 022525          181 ARKGITMFSKV-QVPILGLVENMSCF  205 (295)
Q Consensus       181 ~~~~~~~l~~~-~~~~~~~ViN~~~~  205 (295)
                      --+.+..++.. .++-+ +|.|+++.
T Consensus       173 ~p~vl~~l~~ys~ips~-lvmnkid~  197 (379)
T KOG1423|consen  173 HPRVLHMLEEYSKIPSI-LVMNKIDK  197 (379)
T ss_pred             ChHHHHHHHHHhcCCce-eeccchhc
Confidence            12333333332 23433 67787763

>PRK00698 tmk thymidylate kinase; Validated

Probab=93.24  E-value=0.21  Score=40.57  Aligned_cols=35  Identities=29%  Similarity=0.232  Sum_probs=29.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ++.|+|. +--|+||||++..|+..|.. .|..|...
T Consensus         3 ~~~I~ie-G~~gsGKsT~~~~L~~~l~~-~~~~~~~~   37 (205)
T PRK00698          3 GMFITIE-GIDGAGKSTQIELLKELLEQ-QGRDVVFT   37 (205)
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCceeEe
Confidence            4677775 88899999999999999998 88776654

>PLN02348 phosphoribulokinase

Probab=93.21  E-value=0.22  Score=44.64  Aligned_cols=40  Identities=25%  Similarity=0.315  Sum_probs=31.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC---------------CeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ---------------LKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g---------------~~VlliD~D~~   72 (295)
                      .-+|+| ++-.|+||||++..|+..|.. .+               ..+.+|-+|-.
T Consensus        49 p~IIGI-aG~SGSGKSTfA~~L~~~Lg~-~~~~~~~~~~~~~~l~~~~~~VI~lDDY  103 (395)
T PLN02348         49 TVVIGL-AADSGCGKSTFMRRLTSVFGG-AAKPPKGGNPDSNTLISDTTTVICLDDY  103 (395)
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHHHhh-ccCCCccccccccccccCceEEEEcccc
Confidence            456666 588999999999999999976 42               46778877744

>PTZ00386 formyl tetrahydrofolate synthetase; Provisional

Probab=93.17  E-value=0.12  Score=48.26  Aligned_cols=69  Identities=25%  Similarity=0.268  Sum_probs=48.3

Q ss_pred             CCeEEEEee---CCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCc
Q 022525           30 VKDVIAVAS---GKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGV  102 (295)
Q Consensus        30 ~~~vI~i~s---~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~  102 (295)
                      .+|.|.|++   ..-|.||||++..|+.+|. + .|+++.+-   ..+|++--.||++....-.-...+.|.+..|+
T Consensus        67 ~gklIlVTaitPTP~GEGKtTttIGL~~aL~~~-lgk~~~~~---lRePSlGP~FGiKGGAaGGGysQv~Pme~iNL  139 (625)
T PTZ00386         67 NGKYVVVAGMNPTPLGEGKSTTTIGLAQSLGAH-LHRKTFAC---IRQPSQGPTFGIKGGAAGGGYSQVIPMEDFNL  139 (625)
T ss_pred             CCcEEEEeecCCCCCCCCccchhhhhHHHHHHH-hCcceEEE---EecCCcCCcCCcccccCCCccccccchhhccc
Confidence            367666554   5789999999999999999 7 89998765   34566666688887544444444555444443

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=93.12  E-value=0.15  Score=49.19  Aligned_cols=41  Identities=29%  Similarity=0.252  Sum_probs=35.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +++|.+ .+..|+||||+|..|+..|.. .|..+.++|.|.-.
T Consensus       460 ~~~i~~-~G~~gsGKst~a~~l~~~l~~-~~~~~~~l~~D~~r  500 (632)
T PRK05506        460 PATVWF-TGLSGSGKSTIANLVERRLHA-LGRHTYLLDGDNVR  500 (632)
T ss_pred             cEEEEe-cCCCCchHHHHHHHHHHHHHH-cCCCEEEEcChhhh
Confidence            566666 588899999999999999998 89999999988654

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=93.10  E-value=0.14  Score=45.69  Aligned_cols=38  Identities=32%  Similarity=0.387  Sum_probs=30.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHH--HHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVAL--ASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~l--a~~~g~~VlliD~D   70 (295)
                      |.+.++.+-.|+|||.++.+|+..+  .. .+.+++++-..
T Consensus         1 K~v~~I~G~aGTGKTvla~~l~~~l~~~~-~~~~~~~l~~n   40 (352)
T PF09848_consen    1 KQVILITGGAGTGKTVLALNLAKELQNSE-EGKKVLYLCGN   40 (352)
T ss_pred             CeEEEEEecCCcCHHHHHHHHHHHhhccc-cCCceEEEEec
Confidence            4567778999999999999999999  66 67777766443

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=93.07  E-value=0.29  Score=40.12  Aligned_cols=67  Identities=15%  Similarity=0.057  Sum_probs=37.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHH-HHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALID-ARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~-~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      .+++.++|+++-.....+...-...++.++++..... .+... .......+....  .-.+.+|.|+.+.
T Consensus        53 ~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl  123 (219)
T COG1100          53 NIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDL  123 (219)
T ss_pred             EEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEeccccc
Confidence            4668899998543321222233346777777777664 34333 344444544433  2344599999884

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=93.06  E-value=0.18  Score=47.34  Aligned_cols=40  Identities=28%  Similarity=0.269  Sum_probs=34.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.| .+..|+|||+++.+++...++ .|.+|++|+++..
T Consensus       273 g~~~li-~G~~G~GKT~l~~~~~~~~~~-~g~~~~yis~e~~  312 (509)
T PRK09302        273 GSIILV-SGATGTGKTLLASKFAEAACR-RGERCLLFAFEES  312 (509)
T ss_pred             CcEEEE-EcCCCCCHHHHHHHHHHHHHh-CCCcEEEEEecCC
Confidence            455555 578999999999999999999 9999999998754

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=93.03  E-value=0.16  Score=47.68  Aligned_cols=41  Identities=20%  Similarity=0.111  Sum_probs=34.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~   73 (295)
                      +.++.+ .+..|+|||+++.++++..+. + |.+|++|.++...
T Consensus        31 Gs~~li-~G~pGsGKT~l~~qf~~~~~~-~~ge~~lyis~ee~~   72 (509)
T PRK09302         31 GRPTLV-SGTAGTGKTLFALQFLVNGIK-RFDEPGVFVTFEESP   72 (509)
T ss_pred             CcEEEE-EeCCCCCHHHHHHHHHHHHHH-hcCCCEEEEEccCCH
Confidence            455555 588999999999999998888 6 9999999988754

>PRK07933 thymidylate kinase; Validated

Probab=93.01  E-value=0.22  Score=41.07  Aligned_cols=36  Identities=33%  Similarity=0.385  Sum_probs=30.7

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .|+| -+--|+||||.+..|+..|.. .|.+|.++..-
T Consensus         2 ~Ivi-EG~dGsGKST~~~~L~~~L~~-~g~~v~~~~~P   37 (213)
T PRK07933          2 LIAI-EGVDGAGKRTLTEALRAALEA-RGRSVATLAFP   37 (213)
T ss_pred             EEEE-EcCCCCCHHHHHHHHHHHHHH-CCCeEEEEecC
Confidence            3455 477899999999999999999 99999988764

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=92.96  E-value=0.11  Score=38.55  Aligned_cols=21  Identities=48%  Similarity=0.466  Sum_probs=18.1

Q ss_pred             EeeCCCCCcHHHHHHHHHHHH
Q 022525           36 VASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +.++..|+||||++..|+..+
T Consensus         2 ~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    2 GISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            346889999999999888886

...

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=92.91  E-value=0.14  Score=47.26  Aligned_cols=67  Identities=7%  Similarity=0.086  Sum_probs=47.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.+.+||+|+...........+..+|.+++|+.+... ....+.+.+..++..+++.+.+++|++|.
T Consensus       116 ~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDl  183 (460)
T PTZ00327        116 KRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDL  183 (460)
T ss_pred             cceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccc
Confidence            45689999997533222334556678999999998864 34455666666777788776799999984

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=92.91  E-value=0.21  Score=47.51  Aligned_cols=41  Identities=39%  Similarity=0.381  Sum_probs=33.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|.++ +-.|+||||++..||..|....|.++.++|.|.-
T Consensus       392 g~~Ivl~-Gl~GSGKSTia~~La~~L~~~~g~~~~~lD~D~v  432 (568)
T PRK05537        392 GFTVFFT-GLSGAGKSTIAKALMVKLMEMRGRPVTLLDGDVV  432 (568)
T ss_pred             CeEEEEE-CCCCChHHHHHHHHHHHhhhccCceEEEeCCcHH
Confidence            5677664 8999999999999999998535778999988844

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=92.90  E-value=0.12  Score=37.52  Aligned_cols=21  Identities=48%  Similarity=0.545  Sum_probs=18.9

Q ss_pred             eCCCCCcHHHHHHHHHHHHHH
Q 022525           38 SGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~   58 (295)
                      .+..|+|||+++..|+..+.+
T Consensus         4 ~G~~G~GKS~l~~~l~~~l~~   24 (107)
T PF00910_consen    4 YGPPGIGKSTLAKELAKDLLK   24 (107)
T ss_pred             ECCCCCCHHHHHHHHHHHHHH
Confidence            466699999999999999998

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>cd01895 EngA2 EngA2 subfamily

Probab=92.86  E-value=0.41  Score=37.17  Aligned_cols=67  Identities=10%  Similarity=-0.003  Sum_probs=41.9

Q ss_pred             CCccEEEEcCCCCCCcc-------c----hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA-------Q----LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-------~----~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ...++.++|||+.....       .    .....+..+|.++++..............+..+...+.+++ +|+|+.+.
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~i-iv~nK~Dl  125 (174)
T cd01895          48 DGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDLRIAGLILEEGKALV-IVVNKWDL  125 (174)
T ss_pred             CCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEE-EEEecccc
Confidence            34568999998632210       0    11223457899999988766544444455666655666655 89999984

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=92.83  E-value=0.52  Score=46.55  Aligned_cols=88  Identities=11%  Similarity=0.094  Sum_probs=55.3

Q ss_pred             CCccEEEEcCCCCCCccch----------hhhh--hccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQL----------TTTQ--TLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~----------~~~~--l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .++++.++|+|+..+....          ....  ...+|.++.|++.+..  +.......++.+.+.|.+ +++||.|.
T Consensus        48 ~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~l--er~l~l~~ql~e~giPvI-vVlNK~Dl  124 (772)
T PRK09554         48 TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNL--ERNLYLTLQLLELGIPCI-VALNMLDI  124 (772)
T ss_pred             CceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcc--hhhHHHHHHHHHcCCCEE-EEEEchhh
Confidence            5678999999975442110          1111  1268999999887653  333345556667787765 99999994


Q ss_pred             CCCCCCCCccccCCchhhHHHHHhCCcEEE
Q 022525          206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIG  235 (295)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  235 (295)
                      ....      .. ....+++.+.+|.+++.
T Consensus       125 ~~~~------~i-~id~~~L~~~LG~pVvp  147 (772)
T PRK09554        125 AEKQ------NI-RIDIDALSARLGCPVIP  147 (772)
T ss_pred             hhcc------Cc-HHHHHHHHHHhCCCEEE
Confidence            2110      11 13467788889998775

>PRK13973 thymidylate kinase; Provisional

Probab=92.82  E-value=0.3  Score=40.19  Aligned_cols=35  Identities=31%  Similarity=0.302  Sum_probs=30.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ++.|+| =+--|+||||.+..|+..|.. .|.+|...
T Consensus         3 g~~Ivi-EG~dGsGKtTq~~~l~~~l~~-~g~~~~~~   37 (213)
T PRK13973          3 GRFITF-EGGEGAGKSTQIRLLAERLRA-AGYDVLVT   37 (213)
T ss_pred             ceEEEE-EcCCCCCHHHHHHHHHHHHHH-CCCeEEEE
Confidence            567777 478899999999999999999 99999766

>PTZ00369 Ras-like protein; Provisional

Probab=92.82  E-value=2.9  Score=33.41  Aligned_cols=67  Identities=15%  Similarity=0.079  Sum_probs=40.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+-|+|+|+.-.........+..+|.++++...+. .++..+...++.+.+.    +.++ .+|.|+.+.
T Consensus        51 ~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~pi-iiv~nK~Dl  122 (189)
T PTZ00369         51 ETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPM-ILVGNKCDL  122 (189)
T ss_pred             EEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            34567789998654432222234456788888866544 4566666655555432    3444 589999984

>PRK06547 hypothetical protein; Provisional

Probab=92.78  E-value=0.13  Score=40.87  Aligned_cols=24  Identities=33%  Similarity=0.446  Sum_probs=19.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVA   55 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~   55 (295)
                      +.+|+|. +..|+||||++..|+..
T Consensus        15 ~~~i~i~-G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         15 MITVLID-GRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHH
Confidence            4666665 89999999999888765

>cd01889 SelB_euk SelB subfamily

Probab=92.78  E-value=0.27  Score=39.54  Aligned_cols=67  Identities=13%  Similarity=0.096  Sum_probs=39.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|||+...........+..+|.+++|+......-......+......+.+++ +|+|+.+.
T Consensus        66 ~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~~i-iv~NK~Dl  132 (192)
T cd01889          66 ENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKKLI-VVLNKIDL  132 (192)
T ss_pred             cCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHHcCCCEE-EEEECccc
Confidence            57899999999642211111223345789999988765322222233334444456554 99999984

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=92.77  E-value=0.27  Score=46.96  Aligned_cols=64  Identities=16%  Similarity=0.141  Sum_probs=47.0

Q ss_pred             cEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          141 DILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       141 D~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.|+|||+..............+|.+++|...+......+...+..+...+.|++ +++|+.|.
T Consensus       136 ~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~~~vPiI-VviNKiDl  199 (587)
T TIGR00487       136 MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVPII-VAINKIDK  199 (587)
T ss_pred             EEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEE-EEEECccc
Confidence            68999999765433333344567899999998876666666677777777788854 99999984

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PRK06851 hypothetical protein; Provisional

Probab=92.74  E-value=0.32  Score=43.40  Aligned_cols=46  Identities=22%  Similarity=0.247  Sum_probs=37.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP   77 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~   77 (295)
                      .+.+.+.++..|+||||+...++..+.+ .|.+|-.+=|-....++.
T Consensus        29 ~~~~~il~G~pGtGKStl~~~i~~~~~~-~g~~Ve~~~~~~d~~slD   74 (367)
T PRK06851         29 ANRIFILKGGPGTGKSTLMKKIGEEFLE-KGYDVEFLHCSSDNDSLD   74 (367)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEEcCCCCCcee
Confidence            4556677899999999999999999999 899998886666665554

>PRK07261 topology modulation protein; Provisional

Probab=92.74  E-value=0.14  Score=40.63  Aligned_cols=21  Identities=48%  Similarity=0.578  Sum_probs=16.4

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHH
Q 022525           34 IAVASGKGGVGKSTTAVNLAVA   55 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~   55 (295)
                      |.|+ +.+|+||||++..|+..
T Consensus         3 i~i~-G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          3 IAII-GYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEE-cCCCCCHHHHHHHHHHH
Confidence            4444 79999999999988644

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=92.67  E-value=0.15  Score=40.85  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=19.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      .++|+|.+ ..|+||||++..|+..+
T Consensus         3 ~~ii~i~G-~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVG-GPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEEC-CCCCCHHHHHHHHHHHh
Confidence            46777764 59999999999887654

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=92.67  E-value=0.14  Score=41.58  Aligned_cols=33  Identities=27%  Similarity=0.428  Sum_probs=23.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+.++++..|+||||++..||..+    |..+ ++..|
T Consensus         4 ~~i~i~G~~G~GKst~a~~l~~~~----~~~~-~~~~D   36 (197)
T PRK12339          4 TIHFIGGIPGVGKTSISGYIARHR----AIDI-VLSGD   36 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc----CCeE-EehhH
Confidence            345557999999999999777653    4443 45555

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=92.66  E-value=0.13  Score=41.79  Aligned_cols=40  Identities=30%  Similarity=0.415  Sum_probs=27.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+++.|+.+-.|+||||++..+...+.   +...+.||.|.-.
T Consensus        14 ~P~~~i~aG~~GsGKSt~~~~~~~~~~---~~~~v~i~~D~~r   53 (199)
T PF06414_consen   14 KPTLIIIAGQPGSGKSTLARQLLEEFG---GGGIVVIDADEFR   53 (199)
T ss_dssp             S-EEEEEES-TTSTTHHHHHHHHHHT----TT-SEEE-GGGGG
T ss_pred             CCEEEEEeCCCCCCHHHHHHHhhhhcc---CCCeEEEehHHHH
Confidence            477777889999999999997755443   5678889988643

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK12338 hypothetical protein; Provisional

Probab=92.56  E-value=0.14  Score=44.67  Aligned_cols=35  Identities=34%  Similarity=0.542  Sum_probs=23.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+.++++..|+||||+|..||..+    |.+. +++.|..
T Consensus         5 ~ii~i~G~sGsGKST~a~~la~~l----~~~~-~~~tD~~   39 (319)
T PRK12338          5 YVILIGSASGIGKSTIASELARTL----NIKH-LIETDFI   39 (319)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHC----CCeE-EccChHH
Confidence            455557999999999999777655    4443 4455543

>PRK04040 adenylate kinase; Provisional

Probab=92.53  E-value=0.17  Score=40.86  Aligned_cols=26  Identities=35%  Similarity=0.425  Sum_probs=21.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      +++|+|+ +-.|+||||++..|+..+.
T Consensus         2 ~~~i~v~-G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          2 MKVVVVT-GVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             CeEEEEE-eCCCCCHHHHHHHHHHHhc
Confidence            4666665 7899999999999888774

>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC

Probab=92.50  E-value=0.2  Score=41.78  Aligned_cols=31  Identities=32%  Similarity=0.314  Sum_probs=26.4

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +|+|+   |+.||||+...||..|.. +|++|++-
T Consensus         1 vi~~v---G~gGKTtl~~~l~~~~~~-~g~~v~~T   31 (232)
T TIGR03172         1 VIAFV---GAGGKTSTMFWLAAEYRK-EGYRVLVT   31 (232)
T ss_pred             CEEEE---cCCcHHHHHHHHHHHHHH-CCCeEEEE
Confidence            35555   458999999999999999 99999875

This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.

>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]

Probab=92.48  E-value=0.32  Score=41.27  Aligned_cols=41  Identities=34%  Similarity=0.375  Sum_probs=34.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCe--EEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLK--VGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~--VlliD~D~~~   73 (295)
                      +-+|++ ++.-|+||||+|..|...+++ .+.+  |-+|-+|...
T Consensus        82 pfIIgi-aGsvavGKST~ar~L~~ll~~-~~~~~~v~lvpmDGFh  124 (283)
T COG1072          82 PFIIGI-AGSVAVGKSTTARILQALLSR-WPESPKVDLVTMDGFH  124 (283)
T ss_pred             CEEEEe-ccCccccHHHHHHHHHHHHhh-CCCCCceEEEeccccc
Confidence            466776 588999999999999999999 7665  8888888654

>cd04111 Rab39 Rab39 subfamily

Probab=92.42  E-value=2.9  Score=34.23  Aligned_cols=119  Identities=13%  Similarity=0.146  Sum_probs=65.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+.|+|+++...........+..+|.++++.+.+. .++..+...++.+.+.   ....+.+|.|+.|....     
T Consensus        50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~-----  124 (211)
T cd04111          50 VRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQ-----  124 (211)
T ss_pred             CEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccc-----
Confidence            34678899999644322333344557888888877654 4666666666655432   22345588899985321     


Q ss_pred             ccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHHHHHHH
Q 022525          214 SFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQEL  280 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~~~  280 (295)
                       .........++.+.++.+++.         -+...         .....+.+..|++.+..++...
T Consensus       125 -~~v~~~~~~~~~~~~~~~~~e---------~Sak~---------g~~v~e~f~~l~~~~~~~~~~~  172 (211)
T cd04111         125 -RQVTREEAEKLAKDLGMKYIE---------TSART---------GDNVEEAFELLTQEIYERIKRG  172 (211)
T ss_pred             -cccCHHHHHHHHHHhCCEEEE---------EeCCC---------CCCHHHHHHHHHHHHHHHhhcC
Confidence             111123345555555533221         11111         2235566777777776665443

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=92.32  E-value=0.26  Score=42.23  Aligned_cols=39  Identities=21%  Similarity=0.284  Sum_probs=33.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.++=| -+..|+||||+|.+++..... .|.++++||...
T Consensus        60 g~ItEi-yG~~gsGKT~lal~~~~~aq~-~g~~a~fIDtE~   98 (279)
T COG0468          60 GRITEI-YGPESSGKTTLALQLVANAQK-PGGKAAFIDTEH   98 (279)
T ss_pred             ceEEEE-ecCCCcchhhHHHHHHHHhhc-CCCeEEEEeCCC
Confidence            345555 588999999999999999999 999999999874

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=92.30  E-value=0.23  Score=45.80  Aligned_cols=67  Identities=18%  Similarity=0.114  Sum_probs=56.4

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ...+.+||||+......+-......+|.+++|+..+..-...+...++.++..+.|++ +.+|+.+..
T Consensus        54 ~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a~vP~i-VAiNKiDk~  120 (509)
T COG0532          54 IPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVPIV-VAINKIDKP  120 (509)
T ss_pred             CceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHCCCCEE-EEEecccCC
Confidence            3568999999876654555555667899999999999999999999999999999997 899999853

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=92.24  E-value=0.31  Score=38.63  Aligned_cols=41  Identities=27%  Similarity=0.293  Sum_probs=33.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~~~   73 (295)
                      +...+..+..|||||.++..||..+- . ...+.+.+|+-...
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~-~~~~~~~~d~s~~~   44 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVG-SERPLIRIDMSEYS   44 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-S-SCCEEEEEEGGGHC
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccC-CccchHHHhhhccc
Confidence            44555568999999999999999999 7 67788999887655

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=92.19  E-value=0.27  Score=45.92  Aligned_cols=41  Identities=15%  Similarity=0.094  Sum_probs=32.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.| .+..|+||||++.++++.-+...|.++++|.++..
T Consensus        21 g~~~Li-~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~eE~   61 (484)
T TIGR02655        21 GRSTLV-SGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFEES   61 (484)
T ss_pred             CeEEEE-EcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEecC
Confidence            355555 58899999999999998866614999999998743

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=92.17  E-value=1.6  Score=35.19  Aligned_cols=40  Identities=28%  Similarity=0.376  Sum_probs=34.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +..|.| ++.-|+|||++.-.+-..|.. . +++.+|--|...
T Consensus        13 ~~~i~v-~Gp~GSGKTaLie~~~~~L~~-~-~~~aVI~~Di~t   52 (202)
T COG0378          13 MLRIGV-GGPPGSGKTALIEKTLRALKD-E-YKIAVITGDIYT   52 (202)
T ss_pred             eEEEEe-cCCCCcCHHHHHHHHHHHHHh-h-CCeEEEeceeec
Confidence            366776 478899999999999999998 5 999999888766

>TIGR00376 DNA helicase, putative

Probab=92.13  E-value=0.24  Score=47.79  Aligned_cols=35  Identities=29%  Similarity=0.325  Sum_probs=31.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      -+.++.+..|+||||+.+.+...+.+ .|.+|++.-
T Consensus       174 ~~~lI~GpPGTGKT~t~~~ii~~~~~-~g~~VLv~a  208 (637)
T TIGR00376       174 DLFLIHGPPGTGKTRTLVELIRQLVK-RGLRVLVTA  208 (637)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHH-cCCCEEEEc
Confidence            45667899999999999999999999 999999874

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=92.12  E-value=0.28  Score=38.82  Aligned_cols=31  Identities=32%  Similarity=0.384  Sum_probs=24.6

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +..++.|+||||+...+...|.. .|.+|.-+
T Consensus         3 ~iTG~pG~GKTTll~k~i~~l~~-~~~~v~Gf   33 (168)
T PF03266_consen    3 FITGPPGVGKTTLLKKVIEELKK-KGLPVGGF   33 (168)
T ss_dssp             EEES-TTSSHHHHHHHHHHHHHH-TCGGEEEE
T ss_pred             EEECcCCCCHHHHHHHHHHHhhc-cCCccceE
Confidence            34589999999999999999988 77776443

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=92.11  E-value=0.14  Score=39.99  Aligned_cols=30  Identities=37%  Similarity=0.451  Sum_probs=22.4

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           37 ASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ..+..|+||||++..|+..+.      ..+||.|..
T Consensus         3 l~G~~GsGKSTla~~l~~~l~------~~~v~~D~~   32 (163)
T TIGR01313         3 LMGVAGSGKSTIASALAHRLG------AKFIEGDDL   32 (163)
T ss_pred             EECCCCCCHHHHHHHHHHhcC------CeEEeCccc
Confidence            458899999999998886653      255777654

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK13947 shikimate kinase; Provisional

Probab=92.03  E-value=0.18  Score=39.76  Aligned_cols=31  Identities=32%  Similarity=0.500  Sum_probs=22.6

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      |.+ .+-.|+||||++..||..|    |.+  ++|.|.
T Consensus         4 I~l-~G~~GsGKst~a~~La~~l----g~~--~id~d~   34 (171)
T PRK13947          4 IVL-IGFMGTGKTTVGKRVATTL----SFG--FIDTDK   34 (171)
T ss_pred             EEE-EcCCCCCHHHHHHHHHHHh----CCC--EEECch
Confidence            444 3889999999999887655    444  477775

>PRK07773 replicative DNA helicase; Validated

Probab=92.02  E-value=0.25  Score=49.63  Aligned_cols=42  Identities=17%  Similarity=0.332  Sum_probs=34.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      --+.+.++..|+|||+++.++|...|...|.+|+++.++-..
T Consensus       217 G~livIagrPg~GKT~fal~ia~~~a~~~~~~V~~fSlEms~  258 (886)
T PRK07773        217 GQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLEMSK  258 (886)
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEecCCCH
Confidence            345566799999999999999999996358999999887654

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=92.00  E-value=1.2  Score=34.38  Aligned_cols=66  Identities=17%  Similarity=0.079  Sum_probs=40.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+......+....+..+|.++++...+. .++......++.+.+    .+.|+ .+|.|+.+.
T Consensus        49 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi-iiv~NK~Dl  119 (164)
T cd04145          49 WAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPM-ILVGNKADL  119 (164)
T ss_pred             EEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCE-EEEeeCccc
Confidence            3567889999754433344445567888888877654 345555544444433    24455 489999984

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>PRK14731 coaE dephospho-CoA kinase; Provisional

Probab=92.00  E-value=0.36  Score=39.63  Aligned_cols=32  Identities=34%  Similarity=0.405  Sum_probs=24.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ..+|+++ +.-|+||||++.-    |+. .|..|  +|+|
T Consensus         5 ~~~igit-G~igsGKSt~~~~----l~~-~g~~v--~d~D   36 (208)
T PRK14731          5 PFLVGVT-GGIGSGKSTVCRF----LAE-MGCEL--FEAD   36 (208)
T ss_pred             CEEEEEE-CCCCCCHHHHHHH----HHH-CCCeE--Eecc
Confidence            4677775 8889999999874    456 67766  6888

>PLN02165 adenylate isopentenyltransferase

Probab=91.96  E-value=0.2  Score=44.02  Aligned_cols=38  Identities=29%  Similarity=0.506  Sum_probs=26.9

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ...+++|+|+ +.-|+||||++..||..+.-      -+|++|.-
T Consensus        40 ~~~g~iivIi-GPTGSGKStLA~~LA~~l~~------eIIsaDs~   77 (334)
T PLN02165         40 NCKDKVVVIM-GATGSGKSRLSVDLATRFPS------EIINSDKM   77 (334)
T ss_pred             CCCCCEEEEE-CCCCCcHHHHHHHHHHHcCC------ceecCChh
Confidence            3346677776 68899999999987766532      45777743

>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2

Probab=91.94  E-value=0.11  Score=40.64  Aligned_cols=26  Identities=38%  Similarity=0.342  Sum_probs=22.0

Q ss_pred             CCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           41 GGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        41 GGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      -|+||||++..||..|..      -++|+|..
T Consensus         1 ~GsGKStvg~~lA~~L~~------~fiD~D~~   26 (158)
T PF01202_consen    1 MGSGKSTVGKLLAKRLGR------PFIDLDDE   26 (158)
T ss_dssp             TTSSHHHHHHHHHHHHTS------EEEEHHHH
T ss_pred             CCCcHHHHHHHHHHHhCC------CccccCHH
Confidence            399999999999988887      67899853

7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=91.92  E-value=1  Score=35.50  Aligned_cols=67  Identities=13%  Similarity=0.114  Sum_probs=42.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+......+....+..+|.++++...+. .++..+....+.+.+    .+.|+ .+|.|+.+.
T Consensus        48 ~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~pi-ilvgNK~Dl  119 (172)
T cd04141          48 EPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPL-VLVGNKVDL  119 (172)
T ss_pred             EEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCE-EEEEEChhh
Confidence            45678899998654432333344557888888866544 466666655444443    24455 599999984

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=91.82  E-value=0.38  Score=48.05  Aligned_cols=52  Identities=21%  Similarity=0.233  Sum_probs=36.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC--CCCcccccccCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY--GPSVPMMMKIDQ   84 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~--~~~~~~~~g~~~   84 (295)
                      .-+.++.+..|||||.+|..||..|-. .+..+..+|+...  ..+...++|..+
T Consensus       596 ~~~~lf~Gp~GvGKT~lA~~La~~l~~-~~~~~~~~dmse~~~~~~~~~l~g~~~  649 (852)
T TIGR03345       596 LGVFLLVGPSGVGKTETALALAELLYG-GEQNLITINMSEFQEAHTVSRLKGSPP  649 (852)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHhC-CCcceEEEeHHHhhhhhhhccccCCCC
Confidence            334455689999999999999999877 6678888886432  223445555543

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	295
3kb1_A	262	Crystal Structure Of The Nucleotide-Binding Protein		1e-45
2ph1_A	262	Crystal Structure Of Nucleotide-Binding Protein Af2		3e-44
3vx3_A	248	Crystal Structure Of [nife] Hydrogenase Maturation		1e-23
1hyq_A	263	Mind Bacterial Cell Division Regulator From A. Fulg		4e-09
1g3q_A	237	Crystal Structure Analysis Of Pyrococcus Furiosus C		7e-07
1ion_A	243	The Septum Site-Determining Protein Mind Complexed		1e-05

>pdb|3KB1|A Chain A, Crystal Structure Of The Nucleotide-Binding Protein Af_226 In Complex With Adp From Archaeoglobus Fulgidus, Northeast Structural Genomics Consortium Target Gr157 Length = 262

Iteration: 1
 Score =  179 bits (455), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 95/228 (41%), Positives = 139/228 (60%), Gaps = 4/228 (1%)
Query: 26  KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK 85
           ++D +   IAV SGKGGVGKST    LAV  A + + KVG+LDAD  GPS+P +  +++ 
Sbjct: 13  RLDKIGFRIAVXSGKGGVGKSTVTALLAVHYAKQGK-KVGILDADFLGPSIPHLFGLEKG 71
Query: 86  PEVTKDMKMVPI--ENYGVKCMSMGFLVPS-SSPVVWRGPMVMSALRKMSREVDWGNLDI 142
                D  + P+  +  G+K  S+ FL+P   +PV+WRGP++   +R+    V WG LD 
Sbjct: 72  KVAVSDEGLEPVLTQRLGIKVXSIQFLLPKRETPVIWRGPLIAGXIREFLGRVAWGELDY 131
Query: 143 LVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENM 202
           L+ID+PPGTGDA          +GA+IVSTPQ++      K IT   + +  +LG+VEN 
Sbjct: 132 LLIDLPPGTGDAPLTVXQDAKPNGAVIVSTPQELTAAVVEKAITXAEQTKTAVLGIVENX 191
Query: 203 SCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDG 250
           + F CP+C E +++FG+G     A +  ++ I EIPI+ D+ K SD G
Sbjct: 192 AYFECPNCGERTYLFGEGKASELARKYKIEFITEIPIDSDLLKLSDLG 239

>pdb|2PH1|A Chain A, Crystal Structure Of Nucleotide-Binding Protein Af2382 From Archaeoglobus Fulgidus, Northeast Structural Genomics Target Gr165 Length = 262

Iteration: 1
 Score =  175 bits (443), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 92/228 (40%), Positives = 133/228 (58%), Gaps = 4/228 (1%)
Query: 26  KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK 85
           ++  +K  IAV SGKGGVGKST    LAV  A + + KVG+LDAD  GPS+P++  +   
Sbjct: 13  RLGKIKSRIAVXSGKGGVGKSTVTALLAVHYARQGK-KVGILDADFLGPSIPILFGLRNA 71
Query: 86  PEVTKDMKMVPI--ENYGVKCMSMGFLVP-SSSPVVWRGPMVMSALRKMSREVDWGNLDI 142
                   + P+  + YG+K  S  FL+P  ++PV+WRGP++   +R+    V WG LD 
Sbjct: 72  RIAVSAEGLEPVLTQKYGIKVXSXQFLLPKENTPVIWRGPLIAGXIREFLGRVAWGELDH 131
Query: 143 LVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENM 202
           L+ID+PPGTGDA          +G ++VSTPQ++  +   K I    +    +LGLVEN 
Sbjct: 132 LLIDLPPGTGDAPLTVXQDAKPTGVVVVSTPQELTAVIVEKAINXAEETNTSVLGLVENX 191
Query: 203 SCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDG 250
           S F+CP+C   S+IFG+G     A +  +     IPIE ++ K +D G
Sbjct: 192 SYFVCPNCGHKSYIFGEGKGESLAKKYNIGFFTSIPIEEELIKLADSG 239

>pdb|3VX3|A Chain A, Crystal Structure Of [nife] Hydrogenase Maturation Protein Hypb From Thermococcus Kodakarensis Kod1 Length = 248

Iteration: 1
 Score =  106 bits (265), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 65/179 (36%), Positives = 96/179 (53%), Gaps = 2/179 (1%)
Query: 26  KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK 85
           +++GVK +I V SGKGGVGKS  +  LA+ LA K   +VGLLD D +G S  +++  + K
Sbjct: 14  RLEGVKRIIPVVSGKGGVGKSLVSTTLALVLAEKGY-RVGLLDLDFHGASDHVILGFEPK 72
Query: 86  PEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVI 145
               +D  +VP   +G+K M++ +      P   RG  +  AL ++     W  LD LVI
Sbjct: 73  EFPEEDRGVVPPTVHGIKFMTIAYYT-EDRPTPLRGKEISDALIELLTITRWDELDYLVI 131
Query: 146 DMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC 204
           DMPPG GD              L+V+TP  ++L   RK I +  +    ++G+VENM  
Sbjct: 132 DMPPGLGDQLLDVLRFLKRGEFLVVATPSKLSLNVVRKLIELLKEEGHKVIGVVENMKL 190

>pdb|1HYQ|A Chain A, Mind Bacterial Cell Division Regulator From A. Fulgidus Length = 263

Iteration: 1
 Score = 58.5 bits (140), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 66/247 (26%), Positives = 112/247 (45%), Gaps = 32/247 (12%)
Query: 34  IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMK 93
           I VASGKGG GK+T   NL VALA      V ++DAD+   ++ +++ ++  P       
Sbjct: 5   ITVASGKGGTGKTTITANLGVALAQLGH-DVTIVDADITMANLELILGMEGLP------- 56
Query: 94  MVPIENY---GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNL-------DIL 143
            V ++N      +     ++ P    VV  G + +  LRK + E     L       DIL
Sbjct: 57  -VTLQNVLAGEARIDEAIYVGPGGVKVVPAG-VSLEGLRKANPEKLEDVLTQIMESTDIL 114
Query: 144 VIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMS 203
           ++D P G   +             L+V  P+  ++ D  K   +  ++   +LG+V N  
Sbjct: 115 LLDAPAGLERSAVIAIAAAQE--LLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRI 172
Query: 204 CFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVS 263
             +    ++          +   A +  KVIG IP + ++R+ +  G PVV+ +P+S  +
Sbjct: 173 TTLGIEMAK----------NEIEAILEAKVIGLIPEDPEVRRAAAYGKPVVLRSPNSPAA 222
Query: 264 RAYGEVA 270
           RA  E+A
Sbjct: 223 RAIVELA 229

>pdb|1G3Q|A Chain A, Crystal Structure Analysis Of Pyrococcus Furiosus Cell Division Atpase Mind Length = 237

Iteration: 1
 Score = 51.2 bits (121), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 67/266 (25%), Positives = 116/266 (43%), Gaps = 49/266 (18%)
Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
           +I++ SGKGG GK+T   NL+VAL  + + KV  +D D+   ++ +++ +D  P+VT   
Sbjct: 4   IISIVSGKGGTGKTTVTANLSVALGDRGR-KVLAVDGDLTMANLSLVLGVDD-PDVTLHD 61
Query: 93  KMVPIENYGVKCMSMGF----LVPSSSPVVW---------RGPMVMSALRKMSREVDWGN 139
            +    N         F    ++P +  V W         + P V+ +L+          
Sbjct: 62  VLAGEANVEDAIYMTQFDNVYVLPGA--VDWEHVLKADPRKLPEVIKSLKD--------K 111
Query: 140 LDILVIDMPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLV 199
            D ++ID P G                AL+V+ P+   L D  K   +  K  + ILG V
Sbjct: 112 FDFILIDCPAGL--QLDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFV 169
Query: 200 ENMSCFICPHCSEPSFIFGKGGTH--RTAAE--MGLKVIGEIPIEMDIRKGSDDGVPVVI 255
            N               +G+        AAE  M + ++  IP +  IR+G+ +G+P V 
Sbjct: 170 LNR--------------YGRSDRDIPPEAAEDVMEVPLLAVIPEDPAIREGTLEGIPAVK 215
Query: 256 SAPDSTVSRAYGEVAVNVVNRLQELA 281
             P+S  ++A+    V +   +++LA
Sbjct: 216 YKPESKGAKAF----VKLAEEIEKLA 237

>pdb|1ION|A Chain A, The Septum Site-Determining Protein Mind Complexed With Mg-Adp From Pyrococcus Horikoshii Ot3 Length = 243

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 63/247 (25%), Positives = 111/247 (44%), Gaps = 23/247 (9%)
Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
           +I++ SGKGG GK+T   NL+VAL    + KV  +D D+   ++ +++ +D       D+
Sbjct: 4   IISIVSGKGGTGKTTVTANLSVALGEXGR-KVLAVDGDLTXANLSLVLGVDDVNITLHDV 62
Query: 93  KM--VPIEN--YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD--WGNLDILVID 146
                 +E+  Y  +  ++ +++P +  V W   ++ +  RK+   +    G  D ++ID
Sbjct: 63  LAGDAKLEDAIYXTQFENV-YILPGA--VDWEH-VIKADPRKLPEVIKSLKGKYDFILID 118
Query: 147 MPPGTGDAXXXXXXXXXXSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI 206
            P G                A++V+ P+   L D  K   +  K  + ILG       FI
Sbjct: 119 CPAGL--QLRAXSAXLSGEEAILVTNPEISCLTDTXKVGXVLKKAGLAILG-------FI 169
Query: 207 CPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAY 266
                                   L VI E P+   IR+G+ +G+P V   P+S  ++A+
Sbjct: 170 LNRYGRSERDIPPEAAQDVXDVPLLAVIPEDPV---IREGTLEGIPAVKYKPESKGAQAF 226
Query: 267 GEVAVNV 273
            ++A  V
Sbjct: 227 IKLAEEV 233

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	295
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	1e-138
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	2e-27
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	5e-26
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	1e-24
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	2e-21
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	1e-19
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	9e-19
3cwq_A	209	Para family chromosome partitioning protein; alpha	8e-13
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	9e-13
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	8e-12
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	9e-11
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	1e-10
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	2e-10
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	2e-10
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	7e-10
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	1e-09
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	1e-09
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	5e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	6e-09
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	4e-06
3end_A	307	Light-independent protochlorophyllide reductase ir	1e-05
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	4e-05
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	8e-05
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	1e-04
3igf_A	374	ALL4481 protein; two-domained protein consisting o	4e-04
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	4e-04
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	7e-04
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	7e-04
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	8e-04

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A* Length = 262

 Score =  390 bits (1005), Expect = e-138
 Identities = 101/250 (40%), Positives = 144/250 (57%), Gaps = 5/250 (2%)

Query: 26  KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK 85
           ++  +K  IAV SGKGGVGKST    LAV  A +   KVG+LDAD  GPS+P++  +   
Sbjct: 13  RLGKIKSRIAVMSGKGGVGKSTVTALLAVHYARQG-KKVGILDADFLGPSIPILFGLRNA 71

Query: 86  PEVTKDMKMVPI--ENYGVKCMSMGFLVPS-SSPVVWRGPMVMSALRKMSREVDWGNLDI 142
                   + P+  + YG+K MSM FL+P  ++PV+WRGP++   +R+    V WG LD 
Sbjct: 72  RIAVSAEGLEPVLTQKYGIKVMSMQFLLPKENTPVIWRGPLIAGMIREFLGRVAWGELDH 131

Query: 143 LVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENM 202
           L+ID+PPGTGDA LT  Q  + +G ++VSTPQ++  +   K I M  +    +LGLVENM
Sbjct: 132 LLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEKAINMAEETNTSVLGLVENM 191

Query: 203 SCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTV 262
           S F+CP+C   S+IFG+G     A +  +     IPIE ++ K +D G        D   
Sbjct: 192 SYFVCPNCGHKSYIFGEGKGESLAKKYNIGFFTSIPIEEELIKLADSGRIEEYE-KDWFE 250

Query: 263 SRAYGEVAVN 272
           S  + E   +
Sbjct: 251 SAPFLEHHHH 260

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum} Length = 245

 Score =  105 bits (265), Expect = 2e-27
 Identities = 42/253 (16%), Positives = 83/253 (32%), Gaps = 34/253 (13%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVT--- 89
           V    S KGG G S  A N A AL+ +  + V  +D  +    + M +            
Sbjct: 6   VFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDISLPFGDLDMYLSG-NTHSQDLAD 64

Query: 90  -----KDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILV 144
                  +    ++           L+PS +       +    +  +         D ++
Sbjct: 65  ISNASDRLDKSLLDTMVQHISPSLDLIPSPATFEKIVNIEPERVSDLIHIAA-SFYDYII 123

Query: 145 IDMPPGTGDAQLTTTQTLQLS-GALIVSTPQDVALIDARKGITMFSKVQVPI--LGLVEN 201
           +D         +     L+      IV+TP   +L  A + + +  + + PI  + ++ N
Sbjct: 124 VDFGASIDHVGVW---VLEHLDELCIVTTPSLQSLRRAGQLLKLCKEFEKPISRIEIILN 180

Query: 202 MSCFICPHCSEPSFIFGKGG--THRTAAE-MGLKVIGEIPIEMD-IRKGSDDGVPVVISA 257
                                 T     + +G  +   IP + D +++    G  V+  A
Sbjct: 181 R--------------ADTNSRITSDEIEKVIGRPISKRIPQDEDAMQESLLSGQSVLKVA 226

Query: 258 PDSTVSRAYGEVA 270
           P S +S+   + A
Sbjct: 227 PKSQLSKTIVDWA 239

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A* Length = 254

 Score =  102 bits (255), Expect = 5e-26
 Identities = 44/266 (16%), Positives = 81/266 (30%), Gaps = 51/266 (19%)

Query: 34  IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMM------------- 80
           +AV +GKGGVGK+T A  L   +AS    K+  +D D     +   +             
Sbjct: 3   LAV-AGKGGVGKTTVAAGLIKIMASDYD-KIYAVDGDP-DSCLGQTLGLSIEEAYAITPL 59

Query: 81  -----KIDQKPEVTKDMKMVPIENY-----------GVKCMSMGFLVPSSSPVVWRGPMV 124
                +I +K      + + P  +             +  + MG +    S    R    
Sbjct: 60  IEMKDEIREKTGDGGLLILNPKVDGDLDKYGRYIDDKIFLIRMGEIKKGGSQCYCREN-- 117

Query: 125 MSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKG 184
            S L  +   +     + +V+DM  G     LT      +   + V  P   ++      
Sbjct: 118 -SFLGSVVSALFLDKKEAVVMDMGAGIE--HLTRGTAKAVDMMIAVIEPNLNSIKTGLNI 174

Query: 185 ITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIR 244
             +   + +  +  V N       +  E   I               K++G IP      
Sbjct: 175 EKLAGDLGIKKVRYVINK----VRNIKEEKLIKKHLP--------EDKILGIIPYNELFI 222

Query: 245 KGSDDGVPVVISAPDSTVSRAYGEVA 270
           + S  G  +      +       ++ 
Sbjct: 223 ELSLKGEEIW--QSTNPAFVNLHDIY 246

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10 Length = 263

 Score = 98.8 bits (247), Expect = 1e-24
 Identities = 63/259 (24%), Positives = 109/259 (42%), Gaps = 36/259 (13%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP------ 86
            I VASGKGG GK+T   NL VALA      V ++DAD+   ++ +++ ++  P      
Sbjct: 4   TITVASGKGGTGKTTITANLGVALAQLGH-DVTIVDADITMANLELILGMEGLPVTLQNV 62

Query: 87  -EVTKDMKMVPIE-NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILV 144
                 +         GVK      +VP+   +          L  +  ++   + DIL+
Sbjct: 63  LAGEARIDEAIYVGPGGVK------VVPAGVSLEGLRKANPEKLEDVLTQIM-ESTDILL 115

Query: 145 IDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC 204
           +D P G   + +      Q    L+V  P+  ++ D  K   +  ++   +LG+V N   
Sbjct: 116 LDAPAGLERSAVIAIAAAQ--ELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNR-- 171

Query: 205 FICPHCSEPSFIFGKGGTHRTAAE----MGLKVIGEIPIEMDIRKGSDDGVPVVISAPDS 260
                           G      E    +  KVIG IP + ++R+ +  G PVV+ +P+S
Sbjct: 172 ------------ITTLGIEMAKNEIEAILEAKVIGLIPEDPEVRRAAAYGKPVVLRSPNS 219

Query: 261 TVSRAYGEVAVNVVNRLQE 279
             +RA  E+A  +    ++
Sbjct: 220 PAARAIVELANYIAGGAKK 238

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A* Length = 260

 Score = 89.6 bits (223), Expect = 2e-21
 Identities = 45/248 (18%), Positives = 104/248 (41%), Gaps = 18/248 (7%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVT--- 89
           +I V SGKGGVGK+T++  +A  LA K + K  ++D  +   ++ ++M  +++       
Sbjct: 4   IIVVTSGKGGVGKTTSSAAIATGLAQKGK-KTVVIDFAIGLRNLDLIMGCERRVVYDFVN 62

Query: 90  -----KDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILV 144
                  +    I++   K     +++P+S        +    + K+  ++   + + +V
Sbjct: 63  VIQGDATLNQALIKD---KRTENLYILPASQTRDK-DALTREGVAKVLDDLKAMDFEFIV 118

Query: 145 IDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC 204
            D P G     L          A+I + P+  ++ D+ + + + +          E +  
Sbjct: 119 CDSPAGIETGALMALYFAD--EAIITTNPEVSSVRDSDRILGILASKSRRAENGEEPIKE 176

Query: 205 -FICPHCSEPSFIFGKGGTHRTAAE-MGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTV 262
             +    +      G   +     E + +K++G IP +  + + S+ G PV++   ++  
Sbjct: 177 HLLLTRYNPGRVSRGDMLSMEDVLEILRIKLVGVIPEDQSVLRASNQGEPVILD-INADA 235

Query: 263 SRAYGEVA 270
            +AY +  
Sbjct: 236 GKAYADTV 243

>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} Length = 373

 Score = 86.9 bits (215), Expect = 1e-19
 Identities = 29/185 (15%), Positives = 68/185 (36%), Gaps = 21/185 (11%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP---EVT 89
           V+   S  GGVG ST A   A+A A+  + KV  L+ +  G +  +  + +      +V 
Sbjct: 145 VVIFTSPCGGVGTSTVAAACAIAHANMGK-KVFYLNIEQCG-TTDVFFQAEGNATMSDVI 202

Query: 90  KDMKM------VPIENYGVKCMS-MGFLVPSSSPVVWR--GPMVMSALRKMSREVDWGNL 140
             +K       + +E+   +    + +   +   +         +  L    +     N 
Sbjct: 203 YSLKSRKANLLLKLESCIKQSQEGVSYFSSTKVALDILEISYADIDTLIGNIQG--MDNY 260

Query: 141 DILVIDMPPGTGDAQLTTTQTLQLS-GALIVSTPQDVALIDARKGITMFSKV-QVPILGL 198
           D +++D+P           + L  +   ++V+    ++     +       + Q   + +
Sbjct: 261 DEIIVDLPFSLEI---EKLKLLSKAWRIIVVNDGSQLSNYKFMRAYESVVLLEQNDDINI 317

Query: 199 VENMS 203
           + NM+
Sbjct: 318 IRNMN 322

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A* Length = 237

 Score = 82.2 bits (204), Expect = 9e-19
 Identities = 58/275 (21%), Positives = 106/275 (38%), Gaps = 67/275 (24%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPM-----MMKIDQKP- 86
           +I++ SGKGG GK+T   NL+VAL  + + KV  +D D     + M     ++ +D    
Sbjct: 4   IISIVSGKGGTGKTTVTANLSVALGDRGR-KVLAVDGD-----LTMANLSLVLGVDDPDV 57

Query: 87  ----------EVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD 136
                      V   + M   +N         +++P +             L ++ + + 
Sbjct: 58  TLHDVLAGEANVEDAIYMTQFDNV--------YVLPGAVDWEHVLKADPRKLPEVIKSLK 109

Query: 137 WGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPIL 196
               D ++ID P G        +  L    AL+V+ P+   L D  K   +  K  + IL
Sbjct: 110 -DKFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAIL 166

Query: 197 GLVENMSCFICPHCSEPSFIFGKGGTHRTAAEM----------GLKVIGEIPIEMDIRKG 246
           G V N                     +  +              + ++  IP +  IR+G
Sbjct: 167 GFVLNR--------------------YGRSDRDIPPEAAEDVMEVPLLAVIPEDPAIREG 206

Query: 247 SDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELA 281
           + +G+P V   P+S  ++A+    V +   +++LA
Sbjct: 207 TLEGIPAVKYKPESKGAKAF----VKLAEEIEKLA 237

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP} Length = 209

 Score = 65.1 bits (159), Expect = 8e-13
 Identities = 48/258 (18%), Positives = 74/258 (28%), Gaps = 55/258 (21%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
           +I VAS KGGVGK+TTAV+L+  LA   Q +  L+D D   P          +       
Sbjct: 2   IITVASFKGGVGKTTTAVHLSAYLAL--QGETLLIDGD---P---------NRS------ 41

Query: 93  KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTG 152
                        +      S    V    +      K + +        +VID      
Sbjct: 42  ------------ATGWGKRGSLPFKV----VDERQAAKYAPKYQN-----IVIDTQA--R 78

Query: 153 DAQLTTTQTLQLS-GALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCS 211
                           +I STP  +AL      I    K+      ++  +         
Sbjct: 79  PEDEDLEALADGCDLLVIPSTPDALALDALMLTIETLQKLGNNRFRILLTIIPPYPSKDG 138

Query: 212 EPSFIFGKGGTHRTAAEMGLKVI-GEIPIEMDIRKGSDDGVPVVISAPDSTV--SRAYGE 268
           +           +     GL +    I      +K S +GV V   +          Y  
Sbjct: 139 D--------EARQLLTTAGLPLFKRGIKRYSAFQKASLNGVVVSEVSDSKAGIAWSDYKA 190

Query: 269 VAVNVVNRLQELAKEQEH 286
               +V  +  L     H
Sbjct: 191 TGKEIVEEILTLEHHHHH 208

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A* Length = 206

 Score = 65.1 bits (159), Expect = 9e-13
 Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          VI+  + KGG GK+T  +N+A AL+      + ++D D
Sbjct: 3  VISFLNPKGGSGKTTAVINIATALSRS-GYNIAVVDTD 39

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A Length = 286

 Score = 63.6 bits (155), Expect = 8e-12
 Identities = 19/38 (50%), Positives = 23/38 (60%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          VI V + KGG GKST AV+L  AL      KV ++D D
Sbjct: 6  VIVVGNEKGGAGKSTIAVHLVTALLYG-GAKVAVIDLD 42

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli} Length = 299

 Score = 60.4 bits (147), Expect = 9e-11
 Identities = 32/190 (16%), Positives = 73/190 (38%), Gaps = 28/190 (14%)

Query: 27  IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP 86
           ++   +++ +       GK+  +  LA  +A   Q KV  +DAD+       +  +  + 
Sbjct: 100 METENNILMITGATPDSGKTFVSSTLAAVIAQSDQ-KVLFIDADLRRGYSHNLFTVSNEH 158

Query: 87  ----------EVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD 136
                     E+ K ++      + V  ++ G + P+ S       ++M    +M + ++
Sbjct: 159 GLSEYLAGKDELNKVIQHFGKGGFDV--ITRGQVPPNPS------ELLMR--DRMRQLLE 208

Query: 137 W--GNLDILVIDMPP--GTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQ 192
           W   + D++++D PP     DA +          +L+V+        +    +    +  
Sbjct: 209 WANDHYDLVIVDTPPMLAVSDAAVVGRSV---GTSLLVARFGLNTAKEVSLSMQRLEQAG 265

Query: 193 VPILGLVENM 202
           V I G + N 
Sbjct: 266 VNIKGAILNG 275

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A Length = 267

 Score = 59.9 bits (146), Expect = 1e-10
 Identities = 20/38 (52%), Positives = 26/38 (68%), Gaps = 2/38 (5%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          +I +AS KGGVGKST+A+ LA  L+     KV L+D D
Sbjct: 29 IITIASIKGGVGKSTSAIILATLLSKNN--KVLLIDMD 64

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A* Length = 271

 Score = 59.2 bits (144), Expect = 2e-10
 Identities = 44/184 (23%), Positives = 72/184 (39%), Gaps = 28/184 (15%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP------ 86
            I + S   G GKST A NLAVA A     K  ++D D+  P+   +  +          
Sbjct: 84  SIVITSEAPGAGKSTIAANLAVAYAQAGY-KTLIVDGDMRKPTQHYIFNLPNNEGLSSLL 142

Query: 87  ----EVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDW--GNL 140
                    +    IE+  V  ++ G + P+ S       ++ S  R  +   D    N 
Sbjct: 143 LNWSTYQDSIISTEIEDLDV--LTSGPIPPNPS------ELITS--RAFANLYDTLLMNY 192

Query: 141 DILVIDMPP--GTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGL 198
           + ++ID PP     DAQL +  T      + V   ++    + +KG  +       +LG+
Sbjct: 193 NFVIIDTPPVNTVTDAQLFSKFT---GNVVYVVNSENNNKDEVKKGKELIEATGAKLLGV 249

Query: 199 VENM 202
           V N 
Sbjct: 250 VLNR 253

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli} Length = 286

 Score = 59.2 bits (144), Expect = 2e-10
 Identities = 34/184 (18%), Positives = 73/184 (39%), Gaps = 28/184 (15%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP------ 86
           V+ +      +G +    NLA  ++   + +V L+D D+       ++  +         
Sbjct: 94  VLMMTGVSPSIGMTFVCANLAAVISQTNK-RVLLIDCDMRKGYTHELLGTNNVNGLSEIL 152

Query: 87  ----EVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDW--GNL 140
               ++T   K   I  + +  +  G + P+ S       ++MS   + +  V+W   N 
Sbjct: 153 IGQGDITTAAKPTSIAKFDL--IPRGQVPPNPS------ELLMS--ERFAELVNWASKNY 202

Query: 141 DILVIDMPP--GTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGL 198
           D+++ID PP     DA +           L+V+      L +    ++ F +  +P+ G+
Sbjct: 203 DLVLIDTPPILAVTDAAIVGRHV---GTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGV 259

Query: 199 VENM 202
           + N 
Sbjct: 260 ILNS 263

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes} Length = 298

 Score = 57.6 bits (140), Expect = 7e-10
 Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
          VI     KGGVGKS  +   A         KV ++D D
Sbjct: 38 VILNNYFKGGVGKSKLSTMFAYLTDKLNL-KVLMIDKD 74

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A* Length = 257

 Score = 56.8 bits (138), Expect = 1e-09
 Identities = 21/38 (55%), Positives = 27/38 (71%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
           IA+A+ KGGVGK+TTA+NLA  LA     +V L+D D
Sbjct: 8  RIALANQKGGVGKTTTAINLAAYLARL-GKRVLLVDLD 44

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A Length = 398

 Score = 57.1 bits (138), Expect = 1e-09
 Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 5/43 (11%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQL-----KVGLLDAD 70
           VI +++ KGGV K+ + V+LA A+ +   L     ++ ++D D
Sbjct: 110 VIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLD 152

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae} Length = 361

 Score = 55.6 bits (134), Expect = 5e-09
 Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD 70
           I+  + KGGVGK+T + N+A   A +   +V  +D D
Sbjct: 3  TISFFNNKGGVGKTTLSTNVAHYFALQ-GKRVLYVDCD 39

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

 Score = 56.0 bits (134), Expect = 5e-09
 Identities = 53/299 (17%), Positives = 99/299 (33%), Gaps = 72/299 (24%)

Query: 39  GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIE 98
           G  G GK+  A  L V L+ K Q K   +D  ++       + +         ++M  ++
Sbjct: 157 GVLGSGKTWVA--LDVCLSYKVQCK---MDFKIF------WLNLKNCNSPETVLEM--LQ 203

Query: 99  NYGVKCMSMGFLVPS-SSPVVWRGPMVMSALRKMSREVDWGN-LDIL--VIDMPPGTGDA 154
               +           SS +  R   + + LR++ +   + N L +L  V +      +A
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAWNA 261

Query: 155 ------QLTTTQTLQLSGALIVSTPQDVALIDARKGIT------MFSK-VQVPILGLVEN 201
                  L TT+  Q++  L  +T   ++L      +T      +  K +      L   
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321

Query: 202 MSCFICP-HCSEPSFIFG---KGGTHR-------------TAAEMGLKVIGEIPIEMDIR 244
           +     P   S    I     + G                T  E  L V+   P E   R
Sbjct: 322 V-LTTNPRRLS----IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE--PAEY--R 372

Query: 245 KGSDD------GVPVVISAPDSTVSRAYGEVAVNVVNR-LQELAKE---QEHPESNSTR 293
           K  D          +    P   +S  + +V  + V   + +L K    ++ P+ ++  
Sbjct: 373 KMFDRLSVFPPSAHI----PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A Length = 403

 Score = 55.5 bits (134), Expect = 6e-09
 Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 5/43 (11%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQ-----LKVGLLDAD 70
           VI V + KGGV K+ + V LA AL          L++ ++D D
Sbjct: 113 VIFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLD 155

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A* Length = 334

 Score = 46.5 bits (110), Expect = 4e-06
 Identities = 30/136 (22%), Positives = 55/136 (40%), Gaps = 24/136 (17%)

Query: 38  SGKGGVGKSTTAVNLAVALASKCQLKVGLL--D-----ADVYGPSVPMM----------- 79
            GKGGVGK+TT+ +LA+ LA   +  V LL  D     +D +                  
Sbjct: 22  GGKGGVGKTTTSCSLAIQLAKV-RRSVLLLSTDPAHNLSDAFSQKFGKEARLVEGFDNLY 80

Query: 80  -MKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWG 138
            M+ID    + +D+      +       +G +   +  +   G     +  ++ ++V+  
Sbjct: 81  AMEIDPNGSM-QDLLAGQTGDGDAGMGGVGVMQDLAYAIP--GIDEAMSFAEVLKQVNSL 137

Query: 139 NLDILVIDMPPGTGDA 154
           + + +V D  P TG  
Sbjct: 138 SYETIVFDTAP-TGHT 152

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A* Length = 349

 Score = 43.4 bits (102), Expect = 4e-05
 Identities = 29/138 (21%), Positives = 53/138 (38%), Gaps = 25/138 (18%)

Query: 38  SGKGGVGKSTTAVNLAVALASKCQLKVGLL--D-----ADVYGPSVP------------M 78
            GKGGVGK+T +    V LA K  LKV ++  D      D++                  
Sbjct: 32  GGKGGVGKTTMSAATGVYLAEK-GLKVVIVSTDPAHSLRDIFEQEFGHEPTKVKGYDNLY 90

Query: 79  MMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMV--MSALRKMSREVD 136
           +++ID  P+   +     ++    +   +G ++     +    P     +A     + +D
Sbjct: 91  VVEID--PQKAMEEYKEKLKAQIEENPFLGEMLEDQLEMAALSPGTDESAAFDVFLKYMD 148

Query: 137 WGNLDILVIDMPPGTGDA 154
               D+++ D  P TG  
Sbjct: 149 SNEFDVVIFDTAP-TGHT 165

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A Length = 289

 Score = 42.3 bits (100), Expect = 8e-05
 Identities = 60/268 (22%), Positives = 104/268 (38%), Gaps = 58/268 (21%)

Query: 39  GKGGVGKSTTAVNL--AVALASKCQLKVG----------LLDADVYGPSVPMMMKIDQKP 86
           GKGG+GKSTT  NL  A+A   K  + VG          +L       +   +M++  + 
Sbjct: 9   GKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILH----SKAQNTIMEMAAEA 64

Query: 87  EVTKDMKM--VPIENY-GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSRE-VDWGNLDI 142
              +D+++  V    Y GVKC+  G   P    V   G  V++A+  +  E     +LD 
Sbjct: 65  GTVEDLELEDVLKAGYGGVKCVESGGPEPG---VGCAGRGVITAINFLEEEGAYEDDLDF 121

Query: 143 LVID-----------MPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDAR---KGITMF 188
           +  D           MP     AQ             IV + + +A+  A    KGI  +
Sbjct: 122 VFYDVLGDVVCGGFAMPIRENKAQE----------IYIVCSGEMMAMYAANNISKGIVKY 171

Query: 189 SKV-QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGS 247
           +    V + GL+ N            +           A ++G ++I  +P +  +++  
Sbjct: 172 ANSGSVRLGGLICN----------SRNTDREDELIIALANKLGTQMIHFVPRDNVVQRAE 221

Query: 248 DDGVPVVISAPDSTVSRAYGEVAVNVVN 275
              + V+   P +  +  Y  +A  VV+
Sbjct: 222 IRRMTVIEYDPKAKQADEYRALARKVVD 249

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A* Length = 589

 Score = 42.2 bits (99), Expect = 1e-04
 Identities = 24/138 (17%), Positives = 46/138 (33%), Gaps = 23/138 (16%)

Query: 38  SGKGGVGKSTTAVNLAVALASKCQLKVGLL--D-----ADVYGPSVP------------M 78
           +GKGGVGK++ +   A+ LA +   +V L+  D       V+  ++              
Sbjct: 14  TGKGGVGKTSISCATAIRLAEQ-GKRVLLVSTDPASNVGQVFSQTIGNTIQAIASVPGLS 72

Query: 79  MMKIDQKPEVTKDMKMV--PIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD 136
            ++ID +    +    +  PI+      +        S                ++    
Sbjct: 73  ALEIDPQAAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDASL 132

Query: 137 WGNLDILVIDMPPGTGDA 154
               D ++ D  P TG  
Sbjct: 133 LTRFDHIIFDTAP-TGHT 149

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP} Length = 374

 Score = 40.7 bits (95), Expect = 4e-04
 Identities = 25/133 (18%), Positives = 45/133 (33%), Gaps = 18/133 (13%)

Query: 38  SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP-EVTKDMKMVP 96
            GK GV ++  A+  A  LAS+   +V L         + +   +   P ++  ++++V 
Sbjct: 8   LGKSGVARTKIAIAAAKLLASQ-GKRVLLAGLAEPVLPLLLEQTLTPDPQQIAPNLEVVQ 66

Query: 97  I------ENY--GVKCMSMGFLVPSSSPVVWRGPMV-------MSALRKMSREVDWGNLD 141
                  E     VK +   +L       V+   +V         AL  +      G  D
Sbjct: 67  FQSSVLLERNWEEVKKLEAQYLRTPIIKEVYGQELVVLPGMDSALALNAIREYDASGKYD 126

Query: 142 ILVIDMPPGTGDA 154
            +V D        
Sbjct: 127 TIVYDGTG-DAFT 138

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A* Length = 354

 Score = 40.3 bits (94), Expect = 4e-04
 Identities = 10/21 (47%), Positives = 17/21 (80%)

Query: 38 SGKGGVGKSTTAVNLAVALAS 58
           GKGGVGK+T++ ++A+ +A 
Sbjct: 24 GGKGGVGKTTSSCSIAIQMAL 44

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii} Length = 348

 Score = 39.9 bits (93), Expect = 7e-04
 Identities = 13/21 (61%), Positives = 17/21 (80%)

Query: 38 SGKGGVGKSTTAVNLAVALAS 58
           GKGGVGK+TT+ ++AV LA 
Sbjct: 24 GGKGGVGKTTTSSSVAVQLAL 44

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe} Length = 329

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 29/136 (21%), Positives = 53/136 (38%), Gaps = 25/136 (18%)

Query: 38  SGKGGVGKSTTAVNLAVALASKCQLKVGLL--D-----ADVYGPSVP------------M 78
            GKGGVGK+TT+ +LA+ ++   +  V L+  D     +D +G                 
Sbjct: 25  GGKGGVGKTTTSCSLAIQMSKV-RSSVLLISTDPAHNLSDAFGTKFGKDARKVPGFDNLS 83

Query: 79  MMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWG 138
            M+ID    + +  +    +N       M   +  + P    G     A  ++ +++   
Sbjct: 84  AMEIDPNLSIQEMTEQADQQNPNNPLSGMMQDLAFTIP----GIDEALAFAEILKQIKSM 139

Query: 139 NLDILVIDMPPGTGDA 154
             D ++ D  P TG  
Sbjct: 140 EFDCVIFDTAP-TGHT 154

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid} Length = 324

 Score = 39.5 bits (92), Expect = 8e-04
 Identities = 28/143 (19%), Positives = 50/143 (34%), Gaps = 28/143 (19%)

Query: 34  IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL--D-----ADVYGPSVP--------- 77
                GKGGVGK+T +   A+ +A     K  ++  D     +D     +          
Sbjct: 16  FVFIGGKGGVGKTTISAATALWMARS-GKKTLVISTDPAHSLSDSLEREIGHTPTKITEN 74

Query: 78  -MMMKIDQKPEVTKDMKMV-----PIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKM 131
              ++ID +  + +    +          G+  +     + S SP    G    +A  + 
Sbjct: 75  LYAVEIDPEVAMEEYQAKLQEQAAMNPGMGLDMLQDQMDMASMSP----GIDEAAAFDQF 130

Query: 132 SREVDWGNLDILVIDMPPGTGDA 154
            R +     DI++ D  P TG  
Sbjct: 131 LRYMTTDEYDIVIFDTAP-TGHT 152

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	295
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	100.0
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	100.0
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	100.0
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	100.0
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	100.0
3end_A	307	Light-independent protochlorophyllide reductase ir	100.0
3fwy_A	314	Light-independent protochlorophyllide reductase I	100.0
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	100.0
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	100.0
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	100.0
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	100.0
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	100.0
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	100.0
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	99.98
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	99.97
3cwq_A	209	Para family chromosome partitioning protein; alpha	99.97
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	99.97
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	99.97
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	99.97
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	99.97
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	99.96
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	99.96
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	99.94
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	99.93
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	99.91
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	99.88
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	99.88
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	99.88
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	99.87
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	99.85
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.78
3igf_A	374	ALL4481 protein; two-domained protein consisting o	99.77
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.76
2xxa_A	433	Signal recognition particle protein; protein trans	99.7
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	99.63
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	99.63
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	99.6
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	99.58
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	99.56
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	99.54
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.53
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	99.53
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	99.49
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	99.46
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.44
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	99.39
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	99.29
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	99.26
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	99.13
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.11
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.92
4a0g_A	831	Adenosylmethionine-8-amino-7-oxononanoate aminotra	98.62
3pzx_A	557	Formate--tetrahydrofolate ligase; HET: TOE; 2.20A	98.56
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.49
2obn_A	349	Hypothetical protein; structural genomics, joint c	98.48
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.42
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.31
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.21
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.06
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	97.93
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.92
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	97.74
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.72
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	97.72
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.69
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	97.69
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	97.68
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	97.67
2og2_A	359	Putative signal recognition particle receptor; nuc	97.62
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.61
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	97.6
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.56
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	97.51
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	97.5
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.43
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.42
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	97.42
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	97.41
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.38
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	97.37
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	97.36
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.36
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	97.35
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	97.34
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	97.33
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	97.28
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	97.26
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	97.26
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.25
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	97.24
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	97.23
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	97.2
2g0t_A	350	Conserved hypothetical protein; structural genomic	97.17
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	97.17
2hf9_A	226	Probable hydrogenase nickel incorporation protein	97.16
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	97.16
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	97.15
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	97.12
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	97.11
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.11
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	97.11
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	97.1
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	97.09
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.09
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	97.06
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	97.05
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	97.05
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	97.04
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.0
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.99
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.99
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	96.98
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.98
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	96.97
1s1m_A	545	CTP synthase; CTP synthetase, UTP:ammonia ligase (	96.96
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.95
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.95
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	96.94
1vco_A	550	CTP synthetase; tetramer, riken structural genomic	96.9
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	96.9
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	96.89
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.88
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.88
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.88
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	96.88
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	96.87
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	96.86
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.84
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.84
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.83
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	96.8
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	96.8
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	96.79
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.79
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	96.76
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.76
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.75
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.74
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	96.73
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	96.71
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.71
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	96.7
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	96.68
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	96.67
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	96.65
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.63
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.62
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	96.61
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.6
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	96.59
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	96.59
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	96.57
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	96.56
3io5_A	333	Recombination and repair protein; storage dimer, i	96.49
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.48
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	96.41
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.37
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.36
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.33
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	96.33
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.31
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	96.22
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.2
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.18
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	96.18
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.16
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	96.16
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.15
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.14
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.13
1nrj_B	218	SR-beta, signal recognition particle receptor beta	96.13
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	96.12
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.1
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.04
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	96.02
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.02
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.02
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	96.0
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	95.98
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.95
1wb1_A	482	Translation elongation factor SELB; selenocysteine	95.91
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.83
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	95.78
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.77
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.77
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	95.75
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	95.75
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	95.75
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.65
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.62
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	95.55
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.55
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.54
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	95.53
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.39
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	95.37
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.35
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.34
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.32
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.29
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.23
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	95.2
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.13
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.13
3bos_A	242	Putative DNA replication factor; P-loop containing	95.09
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	95.07
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.04
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	95.02
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.01
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.94
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.79
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.76
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.74
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	94.71
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	94.7
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.69
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.67
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.66
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.6
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.55
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	94.52
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.48
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	94.43
2qgz_A	308	Helicase loader, putative primosome component; str	94.39
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.35
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.27
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.27
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.27
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.25
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.24
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.14
3do6_A	543	Formate--tetrahydrofolate ligase; TM1766, putative	94.07
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.06
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	94.04
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	94.03
1via_A	175	Shikimate kinase; structural genomics, transferase	94.01
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.0
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	93.97
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	93.97
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	93.95
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.9
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.87
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	93.87
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	93.87
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.86
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.79
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.78
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.76
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	93.73
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	93.62
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	93.61
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.59
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.57
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	93.54
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.53
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	93.51
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	93.5
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.49
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	93.45
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	93.32
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.29
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	93.27
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	93.24
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	93.19
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.17
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	93.17
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.16
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.06
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.03
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.02
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.01
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	92.99
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	92.92
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	92.78
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	92.76
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.74
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	92.73
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	92.61
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	92.61
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	92.57
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.54
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	92.51
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	92.51
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	92.49
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	92.48
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.47
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.44
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	92.44
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.39
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	92.38
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	92.37
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	92.36
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	92.31
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	92.29
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	92.29
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	92.28
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	92.22
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.2
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	92.15
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	92.1
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.08
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	92.07
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.01
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.01
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	92.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	91.94
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	91.89
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	91.88
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	91.83
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	91.82
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	91.81
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	91.79
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	91.69
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	91.66
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	91.61
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	91.6
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	91.59
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	91.58
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.57
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	91.52
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.34
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	91.32
2chg_A	226	Replication factor C small subunit; DNA-binding pr	91.31
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.24
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	90.98
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	90.96
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	90.96
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	90.95
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	90.87
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	90.85
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	90.82
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	90.73
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	90.71
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	90.7
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	90.7
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	90.55
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	90.43
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	90.4
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	90.39
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	90.37
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	90.31
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	90.27
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	90.23
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	90.23
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	90.11
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	90.01
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	89.99
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	89.96
2vli_A	183	Antibiotic resistance protein; transferase, tunica	89.96
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	89.93
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	89.86
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	89.83
4a74_A	231	DNA repair and recombination protein RADA; hydrola	89.8
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	89.74
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	89.72
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	89.65
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	89.61
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	89.56
3nrs_A	437	Dihydrofolate:folylpolyglutamate synthetase; struc	89.55
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	89.54
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	89.53
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	89.52
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	89.51
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	89.49
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	89.47
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	89.43
2c5m_A	294	CTP synthase; cytidine 5-prime triphosphate synthe	89.33
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	89.33
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	89.27
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	89.18
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	89.16
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	88.99
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	88.98
1w78_A	422	FOLC bifunctional protein; DHFS, dihydrofolate syn	88.96
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	88.92
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	88.85
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	88.83
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	88.79
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	88.76
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	88.71
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	88.71
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	88.68
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	88.66
2wji_A	165	Ferrous iron transport protein B homolog; membrane	88.58
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	88.56
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	88.54
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	88.48
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	88.43
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	88.37
3orf_A	251	Dihydropteridine reductase; alpha-beta-alpha sandw	88.36
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	88.33
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	88.32
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	88.28
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	88.16
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	88.11
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	88.07
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	87.97
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	87.93
2eyu_A	261	Twitching motility protein PILT; pilus retraction	87.89
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	87.77
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	87.69
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	87.37
2vos_A	487	Folylpolyglutamate synthase protein FOLC; ligase,	87.31
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	87.16
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	87.14
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	87.13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	87.07
1jbw_A	428	Folylpolyglutamate synthase; FPGS folate AMPPCP te	87.03
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	86.99
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	86.97
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	86.79
2ewv_A	372	Twitching motility protein PILT; pilus retraction	86.7
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	86.69
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	86.5
3ged_A	247	Short-chain dehydrogenase/reductase SDR; SCOR, ros	86.44
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	86.18
3nva_A	535	CTP synthase; rossman fold, nucleotide binding, LI	86.16
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	86.12
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	85.97
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	85.89
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	85.71
2fna_A	357	Conserved hypothetical protein; structural genomic	85.63
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	85.57
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	85.57
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	85.49
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	85.45
3eag_A	326	UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-ME	85.45
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	85.32
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	85.17
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	85.05
1e8c_A	498	UDP-N-acetylmuramoylalanyl-D-glutamate--2,6- diami	85.04
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	84.95
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	84.68
3vtz_A	269	Glucose 1-dehydrogenase; rossmann fold, oxidoreduc	84.65
1tue_A	212	Replication protein E1; helicase, replication, E1E	84.59
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	84.59
2vo1_A	295	CTP synthase 1; pyrimidine biosynthesis, glutamine	84.57
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	84.53
1o5z_A	442	Folylpolyglutamate synthase/dihydrofolate synthas;	84.41
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	84.36
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	84.18
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	84.17
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	84.12
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	84.11
3l6e_A	235	Oxidoreductase, short-chain dehydrogenase/reducta;	84.06
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	84.0
2ehd_A	234	Oxidoreductase, oxidoreductase, short-chain dehydr	83.83
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	83.7
3ice_A	422	Transcription termination factor RHO; transcriptio	83.66
2wtz_A	535	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate- -2,6-di	83.5
3dii_A	247	Short-chain dehydrogenase/reductase SDR; SCOR, ros	83.49
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	83.4
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	83.27
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	83.19
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	82.94
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	82.92
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	82.89
1o5i_A	249	3-oxoacyl-(acyl carrier protein) reductase; TM1169	82.81
2ekp_A	239	2-deoxy-D-gluconate 3-dehydrogenase; structural ge	82.8
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	82.68
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	82.64
2l8b_A	189	Protein TRAI, DNA helicase I; RECD, hydrolase; NMR	82.54
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	82.53
3p19_A	266	BFPVVD8, putative blue fluorescent protein; rossma	82.46
3gem_A	260	Short chain dehydrogenase; structural genomics, AP	82.38
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	82.31
3r6d_A	221	NAD-dependent epimerase/dehydratase; structural ge	82.27
3tpc_A	257	Short chain alcohol dehydrogenase-related dehydro;	82.06
3qiv_A	253	Short-chain dehydrogenase or 3-oxoacyl-[acyl-CARR	82.06
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	82.03
3guy_A	230	Short-chain dehydrogenase/reductase SDR; structura	81.98
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	81.97
2fwm_X	250	2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; e	81.83
4dqx_A	277	Probable oxidoreductase protein; structural genomi	81.81
3lyl_A	247	3-oxoacyl-(acyl-carrier-protein) reductase; alpha	81.72
1fjh_A	257	3alpha-hydroxysteroid dehydrogenase/carbonyl reduc	81.64
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	81.61
3tzq_B	271	Short-chain type dehydrogenase/reductase; ssgcid,	81.57
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	81.55
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	81.49
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	81.46
4b79_A	242	PA4098, probable short-chain dehydrogenase; oxidor	81.42
3gvc_A	277	Oxidoreductase, probable short-chain type dehydrog	81.33
3lk7_A	451	UDP-N-acetylmuramoylalanine--D-glutamate ligase; a	81.27
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	81.21
3h7a_A	252	Short chain dehydrogenase; oxidoreductase, PSI-2,	81.16
3sc4_A	285	Short chain dehydrogenase (A0QTM2 homolog); ssgcid	81.11
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	81.03
1ooe_A	236	Dihydropteridine reductase; structural genomics, P	81.02
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	80.79
3m1a_A	281	Putative dehydrogenase; short, PSI, MCSG, structur	80.77
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	80.68
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	80.59
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	80.59
1geg_A	256	Acetoin reductase; SDR family, oxidoreductase; HET	80.53
2cfc_A	250	2-(R)-hydroxypropyl-COM dehydrogenase; NAD, oxidor	80.52
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	80.48
3l77_A	235	Short-chain alcohol dehydrogenase; oxidoreductase;	80.45
1dhr_A	241	Dihydropteridine reductase; oxidoreductase(acting	80.38
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	80.31

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=100.00  E-value=7.3e-36  Score=251.29  Aligned_cols=226  Identities=17%  Similarity=0.167  Sum_probs=179.6

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCCCCccccc-ccCCCccccccCc------------c
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYGPSVPMMM-KIDQKPEVTKDMK------------M   94 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~~~~~~~~-g~~~~~~~~~~~~------------~   94 (295)
                      +++++|+|+|.|||+||||+|+|||..||+ . |+||++||+|+|.++++.++ +..+..++.+...            .
T Consensus         2 ~~~~vI~v~s~kGGvGKTt~a~~LA~~la~-~~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~   80 (245)
T 3ea0_A            2 NAKRVFGFVSAKGGDGGSCIAANFAFALSQ-EPDIHVLAVDISLPFGDLDMYLSGNTHSQDLADISNASDRLDKSLLDTM   80 (245)
T ss_dssp             -CCEEEEEEESSTTSSHHHHHHHHHHHHTT-STTCCEEEEECCTTTCCGGGGTCSSCCSCCHHHHHHTGGGCCHHHHHHH
T ss_pred             CCCeEEEEECCCCCcchHHHHHHHHHHHHh-CcCCCEEEEECCCCCCCHHHHhCCCCCCCCHHHHHhhHhhhhHHHHHHH
Confidence            357999999999999999999999999999 8 99999999999988988888 5555544443211            1


Q ss_pred             cccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC
Q 022525           95 VPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ  174 (295)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~  174 (295)
                      ......++++++.+..      ...........+..+++.++ +.||+|||||||+++  ......+..+|.+|+|+.++
T Consensus        81 ~~~~~~~l~~l~~~~~------~~~~~~~~~~~l~~~l~~l~-~~yD~viiD~p~~~~--~~~~~~l~~ad~viiv~~~~  151 (245)
T 3ea0_A           81 VQHISPSLDLIPSPAT------FEKIVNIEPERVSDLIHIAA-SFYDYIIVDFGASID--HVGVWVLEHLDELCIVTTPS  151 (245)
T ss_dssp             SEEEETTEEEECCCSS------HHHHHHCCHHHHHHHHHHHH-HHCSEEEEEEESSCC--TTHHHHGGGCSEEEEEECSS
T ss_pred             hEecCCCeEEEcCCCC------hHhhhcCCHHHHHHHHHHHH-hhCCEEEEeCCCCCc--hHHHHHHHHCCEEEEEecCc
Confidence            1223356666654321      11111122467888888888 799999999999987  45566788899999999999


Q ss_pred             cchHHHHHHHHHHHhcCC--CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCc-cccccccCCC
Q 022525          175 DVALIDARKGITMFSKVQ--VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEM-DIRKGSDDGV  251 (295)
Q Consensus       175 ~~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~-~~~~a~~~g~  251 (295)
                      ..++..+.++++.+++.+  ...+++|+|+++....           ...+++.+.+|.++++.||++. .+.++...|+
T Consensus       152 ~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~~-----------~~~~~~~~~~~~~v~~~ip~~~~~~~~a~~~g~  220 (245)
T 3ea0_A          152 LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNSR-----------ITSDEIEKVIGRPISKRIPQDEDAMQESLLSGQ  220 (245)
T ss_dssp             HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCTT-----------SCHHHHHHHHTSCEEEEECCCHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCCC-----------CCHHHHHHHhCCCeEEECCCChHHHHHHHHcCC
Confidence            999999999999998876  5678999999974311           1246788889999999999996 7999999999


Q ss_pred             ceEEcCCCChHHHHHHHHHHHHHH
Q 022525          252 PVVISAPDSTVSRAYGEVAVNVVN  275 (295)
Q Consensus       252 ~i~~~~~~s~~~~~~~~l~~~l~~  275 (295)
                      |++++.|+++++++|++|+++|++
T Consensus       221 ~v~~~~~~s~~~~~~~~la~~l~g  244 (245)
T 3ea0_A          221 SVLKVAPKSQLSKTIVDWALHLNG  244 (245)
T ss_dssp             CHHHHCTTSHHHHHHHHHHHCC--
T ss_pred             CccccCCCCHHHHHHHHHHHHHhC
Confidence            999999999999999999998865

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=100.00  E-value=2.5e-35  Score=246.91  Aligned_cols=226  Identities=23%  Similarity=0.308  Sum_probs=180.8

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC-ccccccCc--------ccccccC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK-PEVTKDMK--------MVPIENY  100 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~-~~~~~~~~--------~~~~~~~  100 (295)
                      |+++|+|+|.|||+||||+|+|||..||+ +|+||++||+|+++++++.++|..+. .++.+...        ..+....
T Consensus         1 M~~~i~v~s~kgGvGKTt~a~~LA~~la~-~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~i~~~~~~   79 (237)
T 1g3q_A            1 MGRIISIVSGKGGTGKTTVTANLSVALGD-RGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFD   79 (237)
T ss_dssp             CCEEEEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSST
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHHHHHh-cCCeEEEEeCCCCCCChhHhcCCCCCCCCHHHHhcCCCCHHHHhhcCCCC
Confidence            46999999999999999999999999999 99999999999998899999998775 34332210        1111124


Q ss_pred             CceeeccccccCCCCCCccCCchH-HHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMV-MSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~  179 (295)
                      ++++++..      ..... .... ...+..+++.++ ..||+|||||||+++  ......+..+|.+|+|+.++..++.
T Consensus        80 ~l~~lp~~------~~~~~-~~~~~~~~l~~~l~~l~-~~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~  149 (237)
T 1g3q_A           80 NVYVLPGA------VDWEH-VLKADPRKLPEVIKSLK-DKFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPEISCLT  149 (237)
T ss_dssp             TEEEECCC------CSHHH-HHHCCGGGHHHHHHTTG-GGCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSCHHHHH
T ss_pred             CEEEEeCC------Cccch-hhhcCHHHHHHHHHHHH-hcCCEEEEECCCCcC--HHHHHHHHHCCeEEEEecCCcccHH
Confidence            45555411      11000 0011 356778888888 899999999999988  4556677889999999999999999


Q ss_pred             HHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCC
Q 022525          180 DARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPD  259 (295)
Q Consensus       180 ~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~  259 (295)
                      .+.+.++.+++.+.+.+++|+|+++.....          ...+++.+.+|.++++.||+++.+.++...|+|+.++.|+
T Consensus       150 ~~~~~~~~l~~~~~~~~~vv~N~~~~~~~~----------~~~~~~~~~~~~~~~~~Ip~~~~~~~a~~~g~~v~~~~~~  219 (237)
T 1g3q_A          150 DTMKVGIVLKKAGLAILGFVLNRYGRSDRD----------IPPEAAEDVMEVPLLAVIPEDPAIREGTLEGIPAVKYKPE  219 (237)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEEEEETSCTTC----------CCHHHHHHHHCSCEEEEEECCHHHHHHHHHTSCHHHHSTT
T ss_pred             HHHHHHHHHHhCCCceEEEEEecCCcccch----------hHHHHHHHHhCccceeeCCCChHHHHHHHcCCCeEEeCCC
Confidence            999999999988888999999999843111          3367788889999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHHH
Q 022525          260 STVSRAYGEVAVNVVNR  276 (295)
Q Consensus       260 s~~~~~~~~l~~~l~~~  276 (295)
                      ++++++|.+|+++|+++
T Consensus       220 ~~~~~~~~~la~~l~~~  236 (237)
T 1g3q_A          220 SKGAKAFVKLAEEIEKL  236 (237)
T ss_dssp             SHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            99999999999999753

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=100.00  E-value=2.7e-35  Score=250.01  Aligned_cols=229  Identities=16%  Similarity=0.254  Sum_probs=181.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC--ccccccC--------cccc-cc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK--PEVTKDM--------KMVP-IE   98 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~--~~~~~~~--------~~~~-~~   98 (295)
                      |+++|+|+|.|||+||||+|+|||.+||+ +|++|++||+|+++++++.++|....  .++.+..        .... ..
T Consensus         1 M~~vi~v~s~kgGvGKTt~a~~LA~~la~-~g~~VlliD~D~~~~~~~~~lg~~~~~~~~l~~~l~~~~~~~~~~~~~~~   79 (260)
T 3q9l_A            1 MARIIVVTSGKGGVGKTTSSAAIATGLAQ-KGKKTVVIDFAIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKR   79 (260)
T ss_dssp             -CEEEEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCCSSCCHHHHTTCGGGCCSCHHHHHTTSSCHHHHCEECSS
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHh-CCCcEEEEECCCCCCChhHHhCCCCcccCCHHHHhcCCCChHHheeccCC
Confidence            47999999999999999999999999999 99999999999988899999988654  2222210        0111 12


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCC-CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWG-NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~-~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s  177 (295)
                      ..++++++.+...       .........+..+++.++ . .||+|||||||+++  ......+..+|.+|+|+.++..+
T Consensus        80 ~~~l~~lp~~~~~-------~~~~~~~~~~~~~l~~l~-~~~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~~~~s  149 (260)
T 3q9l_A           80 TENLYILPASQTR-------DKDALTREGVAKVLDDLK-AMDFEFIVCDSPAGIE--TGALMALYFADEAIITTNPEVSS  149 (260)
T ss_dssp             STTEEEECCCSCC-------CTTSSCHHHHHHHHHHHH-HTTCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECSSHHH
T ss_pred             CCCEEEecCCCcc-------chhhCCHHHHHHHHHHHh-ccCCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecCChhH
Confidence            3566776654321       122334677888888888 7 99999999999988  45667777999999999999999


Q ss_pred             HHHHHHHHHHHhcCCC--------CeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccC
Q 022525          178 LIDARKGITMFSKVQV--------PILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDD  249 (295)
Q Consensus       178 ~~~~~~~~~~l~~~~~--------~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~  249 (295)
                      +..+.++++.++..+.        ..+++|+|+++.......      .....+++.+.+|.++++.||++..+.++...
T Consensus       150 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~Ip~~~~~~~a~~~  223 (260)
T 3q9l_A          150 VRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPGRVSRG------DMLSMEDVLEILRIKLVGVIPEDQSVLRASNQ  223 (260)
T ss_dssp             HHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECHHHHHTT------SSCCHHHHHHHHCSEEEEEEECCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccccccCCcceEEEEecCCccccccc------cccCHHHHHHHhCCceEEecCCChhHHHHHHc
Confidence            9999999999987542        478999999974211100      01124788889999999999999999999999


Q ss_pred             CCceEEcCCCChHHHHHHHHHHHHHHH
Q 022525          250 GVPVVISAPDSTVSRAYGEVAVNVVNR  276 (295)
Q Consensus       250 g~~i~~~~~~s~~~~~~~~l~~~l~~~  276 (295)
                      |.|+++ .|+++++++|.+++++|+++
T Consensus       224 g~~v~~-~~~s~~~~~~~~la~~l~~~  249 (260)
T 3q9l_A          224 GEPVIL-DINADAGKAYADTVERLLGE  249 (260)
T ss_dssp             TCCGGG-CTTCHHHHHHHHHHHHHTTC
T ss_pred             CCCeEE-CCCCHHHHHHHHHHHHHhcC
Confidence            999999 99999999999999999763

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=100.00  E-value=2.7e-35  Score=250.54  Aligned_cols=226  Identities=26%  Similarity=0.373  Sum_probs=180.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC-ccccccCc-------ccccccCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK-PEVTKDMK-------MVPIENYG  101 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~-~~~~~~~~-------~~~~~~~~  101 (295)
                      |+++|+|+|+|||+||||+|+|||..||+ .|++|++||+|+++++++.++|..+. .++.+...       .......+
T Consensus         1 M~~~I~v~s~kgGvGKTt~a~~LA~~la~-~g~~VlliD~D~~~~~l~~~l~~~~~~~~l~~~l~~~~~~~~~i~~~~~~   79 (263)
T 1hyq_A            1 MVRTITVASGKGGTGKTTITANLGVALAQ-LGHDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYVGPGG   79 (263)
T ss_dssp             -CEEEEEEESSSCSCHHHHHHHHHHHHHH-TTCCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEECGGG
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHHHh-CCCcEEEEECCCCCCCcchhcCCCCCCCCHHHHHcCCCcHHHhheeCCCC
Confidence            46999999999999999999999999999 99999999999988899999998775 34332210       00011244


Q ss_pred             ceeeccccccCCCCCCccCCchH-HHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHH
Q 022525          102 VKCMSMGFLVPSSSPVVWRGPMV-MSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                      +++++..      .... ..... ...+..+++.++ ..||+|||||||+.+  ......+..+|.+|+|+.++..++..
T Consensus        80 l~~lp~~------~~~~-~~~~~~~~~l~~~l~~l~-~~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~~  149 (263)
T 1hyq_A           80 VKVVPAG------VSLE-GLRKANPEKLEDVLTQIM-ESTDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITD  149 (263)
T ss_dssp             CEEEECC------SCHH-HHHHHCHHHHHHHHHHHH-HTCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHH
T ss_pred             eEEEcCC------CCcC-hhhccChHHHHHHHHHHH-hhCCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCCChhHHHH
Confidence            5555521      1110 01112 567788888888 899999999999988  45566777899999999999999999


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCC
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDS  260 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s  260 (295)
                      +.+.++.+++.+.+.+++|+|+++..       ...   ...+++.+.+|.++++.||+++.+.++...|.|+.++.|++
T Consensus       150 ~~~~~~~l~~~~~~~~~vv~N~~~~~-------~~~---~~~~~~~~~~~~~~~~~Ip~~~~~~~a~~~g~~v~~~~~~~  219 (263)
T 1hyq_A          150 GLKTKIVAERLGTKVLGVVVNRITTL-------GIE---MAKNEIEAILEAKVIGLIPEDPEVRRAAAYGKPVVLRSPNS  219 (263)
T ss_dssp             HHHHHHHHHHHTCEEEEEEEEEECTT-------THH---HHHHHHHHHTTSCEEEEEECCHHHHHHHHHTSCHHHHCTTS
T ss_pred             HHHHHHHHHhcCCCeeEEEEccCCcc-------ccc---chHHHHHHHhCCCeEEECCCCHHHHHHHHcCCceEEcCCCC
Confidence            99999999888888999999999732       111   34677888899999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHH
Q 022525          261 TVSRAYGEVAVNVVNR  276 (295)
Q Consensus       261 ~~~~~~~~l~~~l~~~  276 (295)
                      +++++|.+++++|.++
T Consensus       220 ~~~~~~~~la~~l~~~  235 (263)
T 1hyq_A          220 PAARAIVELANYIAGG  235 (263)
T ss_dssp             HHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999999999886

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=100.00  E-value=3.8e-34  Score=243.38  Aligned_cols=228  Identities=43%  Similarity=0.755  Sum_probs=173.1

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCccccc--ccCCcee
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPI--ENYGVKC  104 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~--~~~~~~~  104 (295)
                      +..++++|+|+|+||||||||+|+|||..||+ .|+||++||+|+|+++++.++|..+...+.......+.  ...++++
T Consensus        14 l~~~~~vI~v~s~kGGvGKTT~a~nLA~~la~-~G~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~v   92 (262)
T 2ph1_A           14 LGKIKSRIAVMSGKGGVGKSTVTALLAVHYAR-QGKKVGILDADFLGPSIPILFGLRNARIAVSAEGLEPVLTQKYGIKV   92 (262)
T ss_dssp             HTTCSCEEEEECSSSCTTHHHHHHHHHHHHHH-TTCCEEEEECCSSCCHHHHHTTCCSCCCEEETTEEECEECTTTCCEE
T ss_pred             hccCCeEEEEEcCCCCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCCCCCHHHHhcCCCccccccccCccccccCCCCeEE
Confidence            34457999999999999999999999999999 99999999999999888888988754322111112222  3456777


Q ss_pred             eccccccCCCCC-CccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHH
Q 022525          105 MSMGFLVPSSSP-VVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       105 ~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                      ++.+........ ...........+.++++.+++..||||||||||+++........+..+|.+|+|+.++..++..+.+
T Consensus        93 lp~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~  172 (262)
T 2ph1_A           93 MSMQFLLPKENTPVIWRGPLIAGMIREFLGRVAWGELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEK  172 (262)
T ss_dssp             ECGGGGSTTCSSCCCCCSHHHHHHHHHHHHSBCCCSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSSCCHHHHHH
T ss_pred             EeccccCCCcccchhhcCchHHHHHHHHHHHhhccCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCccchHHHHHH
Confidence            777654433221 1122334566788888877546899999999999885334444444789999999999999999999


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVI  255 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~  255 (295)
                      .++.+++.+.+.+|+|+|+++...+.+......+.....+++.+.+|.++++.||++..+.++...|+|++.
T Consensus       173 ~~~~l~~~~~~~~gvV~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~~~~  244 (262)
T 2ph1_A          173 AINMAEETNTSVLGLVENMSYFVCPNCGHKSYIFGEGKGESLAKKYNIGFFTSIPIEEELIKLADSGRIEEY  244 (262)
T ss_dssp             HHHHHHTTTCCEEEEEETTCCEECTTTCCEECTTCCCCHHHHHHHTTCSEEEECCBCHHHHHHHHTTCGGGC
T ss_pred             HHHHHHhCCCCEEEEEECCCccCCcccccccccccccHHHHHHHHcCCCeEEEeeCchHHHHhccCCceeec
Confidence            999999889999999999998543332222222233457889999999999999999999999999999863

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=100.00  E-value=1.2e-33  Score=244.87  Aligned_cols=231  Identities=20%  Similarity=0.177  Sum_probs=169.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc------------Cccccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD------------MKMVPI   97 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~------------~~~~~~   97 (295)
                      ..|+|||+ +||||||||+|+|||.+||+ .|+||++||+|+|.+++..+.+..........            ......
T Consensus        47 ~aKVIAIa-GKGGVGKTTtavNLA~aLA~-~GkkVllID~Dpq~~s~~~l~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~  124 (314)
T 3fwy_A           47 GAKVFAVY-GKGGIGKSTTSSNLSAAFSI-LGKRVLQIGCDPKHDSTFTLTGSLVPTVIDVLKDVDFHPEELRPEDFVFE  124 (314)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHH-TTCCEEEEEESSSCCTTHHHHTSCCCCHHHHHHHTTSCGGGCCHHHHCEE
T ss_pred             CceEEEEE-CCCccCHHHHHHHHHHHHHH-CCCeEEEEecCCCCcccccccCCCCCcchhhHhhhccccccccHhHheee
Confidence            47999998 69999999999999999999 99999999999998776544433322111100            011222


Q ss_pred             ccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch
Q 022525           98 ENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s  177 (295)
                      ...++.+++.+...+.   ..+........+..+.+...++.||+|++||+++.....+ ..++..||.+|||+.++.++
T Consensus       125 ~~~~i~~v~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~d~~D~v~iD~~~~~~~~~~-~~al~aAd~viIvt~~e~~A  200 (314)
T 3fwy_A          125 GFNGVMCVEAGGPPAG---TGCGGYVVGQTVKLLKQHHLLDDTDVVIFDVLGDVVCGGF-AAPLQHADQAVVVTANDFDS  200 (314)
T ss_dssp             CGGGCEEEECCCCCTT---CSCTTHHHHHHHHHHHHTTTTSSCSEEEEEECCSSCCGGG-GGGGGTCSEEEEEECSSHHH
T ss_pred             cCCCeEEEeCCCCccc---chhhhccHHHHHHHHHhcchhhcCceEeeccCCcchhhhh-HhHHhhCCeEEEEeCCcHHH
Confidence            3345556555432221   1222222334444444332237899999999998875333 25567899999999999999


Q ss_pred             HHHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCce
Q 022525          178 LIDARKGITMFSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPV  253 (295)
Q Consensus       178 ~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i  253 (295)
                      +.++.++++.++..    +.++.|+|+|+...             ....+++.++++.++++.||++..+.++...|+|+
T Consensus       201 l~~~~~l~~~i~~~~~~~~~~l~GiI~n~~~~-------------~~~v~~~a~~~~~~~lg~IP~d~~Vr~a~~~G~pv  267 (314)
T 3fwy_A          201 IYAMNRIIAAVQAKSKNYKVRLAGCVANRSRA-------------TDEVDRFCKETNFRRLAHMPDLDAIRRSRLKKKTL  267 (314)
T ss_dssp             HHHHHHHHHHHHTTTTTCCCEEEEEEEESCSC-------------CHHHHHHHHHHTCCEEEEECCCHHHHHHHHTTCCT
T ss_pred             HHHHHHHHHHHHHHhccCCCceEEEEEcCCCc-------------hhHHHHHHHHhCCeEEEEecCchHHHHHHHcCCce
Confidence            99999888877653    45667899987541             24578899999999999999999999999999999


Q ss_pred             EEcCCCChHHHH---HHHHHHHHHHHHHH
Q 022525          254 VISAPDSTVSRA---YGEVAVNVVNRLQE  279 (295)
Q Consensus       254 ~~~~~~s~~~~~---~~~l~~~l~~~~~~  279 (295)
                      +++.|+|+.+.+   |++||++|++..+.
T Consensus       268 v~~~P~S~~a~aa~~Y~~LA~eil~~~~~  296 (314)
T 3fwy_A          268 FEMDEDQDVLAARAEYIRLAESLWRGLDP  296 (314)
T ss_dssp             TTSCCCHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             EEECCCChhhHHHHHHHHHHHHHHhCCCC
Confidence            999999986555   99999999876543

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=100.00  E-value=5.2e-34  Score=233.71  Aligned_cols=200  Identities=18%  Similarity=0.193  Sum_probs=165.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      |++|+|+|+|||+||||+|+|||..|++ +|++|++||+|+|+ ++..+++..+               .++++++.+  
T Consensus         1 M~vi~v~s~kgG~GKTt~a~~la~~la~-~g~~vlliD~D~~~-~~~~~~~~~~---------------~~~~~~~~~--   61 (206)
T 4dzz_A            1 MKVISFLNPKGGSGKTTAVINIATALSR-SGYNIAVVDTDPQM-SLTNWSKAGK---------------AAFDVFTAA--   61 (206)
T ss_dssp             CEEEEECCSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTTC-HHHHHHTTSC---------------CSSEEEECC--
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHH-CCCeEEEEECCCCC-CHHHHHhcCC---------------CCCcEEecC--
Confidence            5899999999999999999999999999 99999999999987 4455554321               124444432  


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhc
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSK  190 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~  190 (295)
                                    ...+...++.++ +.||+|||||||+.+  ......+..+|.+++|+.++..+ ..+.+.++.+++
T Consensus        62 --------------~~~l~~~l~~l~-~~yD~viiD~~~~~~--~~~~~~l~~ad~viiv~~~~~~~-~~~~~~~~~l~~  123 (206)
T 4dzz_A           62 --------------SEKDVYGIRKDL-ADYDFAIVDGAGSLS--VITSAAVMVSDLVIIPVTPSPLD-FSAAGSVVTVLE  123 (206)
T ss_dssp             --------------SHHHHHTHHHHT-TTSSEEEEECCSSSS--HHHHHHHHHCSEEEEEECSCTTT-HHHHHHHHHHHT
T ss_pred             --------------cHHHHHHHHHhc-CCCCEEEEECCCCCC--HHHHHHHHHCCEEEEEecCCHHH-HHHHHHHHHHHH
Confidence                          156778888888 889999999999996  55667778899999999999999 999999999986


Q ss_pred             CC-----CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE-EeecCCccccccccCCCceEEcCCCChHHH
Q 022525          191 VQ-----VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI-GEIPIEMDIRKGSDDGVPVVISAPDSTVSR  264 (295)
Q Consensus       191 ~~-----~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~  264 (295)
                      .+     .++ ++|+|+++..       ...  .....+..+.+|.+++ +.||++..+.++...|.|+++ .|++++++
T Consensus       124 ~~~~~~~~~~-~vv~N~~~~~-------~~~--~~~~~~~l~~~~~~vl~~~Ip~~~~~~~a~~~g~~v~~-~~~s~~~~  192 (206)
T 4dzz_A          124 AQAYSRKVEA-RFLITRKIEM-------ATM--LNVLKESIKDTGVKAFRTAITQRQVYVKSILDGDSVFE-SSDGAAKG  192 (206)
T ss_dssp             TSCGGGCCEE-EEEECSBCTT-------EEE--EHHHHHHHHHHTCCBCSSCCBCCHHHHHHHHTTCCGGG-SSCHHHHH
T ss_pred             HHHhCCCCcE-EEEEeccCCC-------chH--HHHHHHHHHHcCCceeeccccccHHHHHHHHcCCCccc-CCchHHHH
Confidence            53     344 9999999732       111  1346677777899988 799999999999999999999 99999999


Q ss_pred             HHHHHHHHHHHHHH
Q 022525          265 AYGEVAVNVVNRLQ  278 (295)
Q Consensus       265 ~~~~l~~~l~~~~~  278 (295)
                      +|.+|+++|+++++
T Consensus       193 ~~~~la~~i~~~le  206 (206)
T 4dzz_A          193 EIEILTKEIVRIFE  206 (206)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhC
Confidence            99999999998763

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=100.00  E-value=8.6e-34  Score=239.46  Aligned_cols=221  Identities=18%  Similarity=0.116  Sum_probs=169.8

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcc--------ccccC------------
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPE--------VTKDM------------   92 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~--------~~~~~------------   92 (295)
                      .|+| |+||||||||+|+|||..||+ +|+||++||+|+| ++++.+||..+...        +.+..            
T Consensus         2 kI~v-s~kGGvGKTt~a~~LA~~la~-~g~~VlliD~D~~-~~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (254)
T 3kjh_A            2 KLAV-AGKGGVGKTTVAAGLIKIMAS-DYDKIYAVDGDPD-SCLGQTLGLSIEEAYAITPLIEMKDEIREKTGDGGLLIL   78 (254)
T ss_dssp             EEEE-ECSSSHHHHHHHHHHHHHHTT-TCSCEEEEEECTT-SCHHHHTTCCHHHHHTSCCGGGCHHHHHHHHCSSSCCCS
T ss_pred             EEEE-ecCCCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCC-cChHHHhCCCcccccccccchhHHHHHHhhccCCccccc
Confidence            3888 889999999999999999999 9999999999998 79999998865432        11100            


Q ss_pred             ----cccc----cccCCcee-eccccccCCCCCCccCCchHHHHHHHHHHhc-cCCCccEEEEcCCCCCCccchhhhhhc
Q 022525           93 ----KMVP----IENYGVKC-MSMGFLVPSSSPVVWRGPMVMSALRKMSREV-DWGNLDILVIDMPPGTGDAQLTTTQTL  162 (295)
Q Consensus        93 ----~~~~----~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l-~~~~yD~iiiD~~~~~~~~~~~~~~l~  162 (295)
                          ...|    ....++.+ ++.+..........   ......+..+++.+ + ..||+|||||||+++.  .....+.
T Consensus        79 ~~~l~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~---~~~~~~l~~~l~~l~~-~~yD~viiD~pp~~~~--~~~~~l~  152 (254)
T 3kjh_A           79 NPKVDGDLDKYGRYIDDKIFLIRMGEIKKGGSQCY---CRENSFLGSVVSALFL-DKKEAVVMDMGAGIEH--LTRGTAK  152 (254)
T ss_dssp             SCCCTTSGGGSSEESSSSEEEEECCCCCCCCSSCC---HHHHHHHHHHHHHHHH-TCCSEEEEEECTTCTT--CCHHHHT
T ss_pred             CCchhccHHhcccccCCeEEEEEecccccCCCCCC---cchHHHHHHHHHHhcc-CCCCEEEEeCCCcccH--HHHHHHH
Confidence                0000    01112222 32222111111111   11125588888888 7 8999999999999984  5567778


Q ss_pred             cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhC-CcEEEeecCCc
Q 022525          163 QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMG-LKVIGEIPIEM  241 (295)
Q Consensus       163 ~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g-~~~~~~Ip~~~  241 (295)
                      .+|.+|+|+.++..++..+.++.+.+.+.+.+.+++|+|+++.             ....+++.+.++ .++.+.||++.
T Consensus       153 ~aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~~v~N~~~~-------------~~~~~~~~~~~~~~~~~~~Ip~~~  219 (254)
T 3kjh_A          153 AVDMMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKVRN-------------IKEEKLIKKHLPEDKILGIIPYNE  219 (254)
T ss_dssp             TCSEEEEEECSSHHHHHHHHHHHHHHHHHTCSCEEEEEEEECC-------------HHHHHHHHHHSCGGGEEEEEECCH
T ss_pred             HCCEEEEecCCCHHHHHHHHHHHHHHHHcCCccEEEEEeCCCC-------------hhHHHHHHHHhcCCcccccccCcH
Confidence            9999999999999999999999998888888888999999872             134677888887 78889999999


Q ss_pred             cccccccCCCceEEcCCCChHHHHHHHHHHHHHHHH
Q 022525          242 DIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       242 ~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      .+.++...|+|++++.|  +++++|++++++|+++.
T Consensus       220 ~~~~a~~~g~~~~~~~~--~~~~~~~~la~~l~~~~  253 (254)
T 3kjh_A          220 LFIELSLKGEEIWQSTN--PAFVNLHDIYQKLRLEV  253 (254)
T ss_dssp             HHHSCSSSSCCTTSTTS--TTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCccccCCc--HHHHHHHHHHHHHHhhc
Confidence            99999999999998876  79999999999998875

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=100.00  E-value=1.1e-33  Score=241.40  Aligned_cols=234  Identities=20%  Similarity=0.198  Sum_probs=170.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCc----------ccccccC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMK----------MVPIENY  100 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~----------~~~~~~~  100 (295)
                      |++|+| ++||||||||+|+|||..||+ +|+||++||+|+|++.+..+++..+..++.+...          .......
T Consensus         1 M~vI~v-s~KGGvGKTT~a~nLA~~la~-~G~~VlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~i~~~~~   78 (269)
T 1cp2_A            1 MRQVAI-YGKGGIGKSTTTQNLTSGLHA-MGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYG   78 (269)
T ss_dssp             CEEEEE-EECTTSSHHHHHHHHHHHHHT-TTCCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHHHCEECGG
T ss_pred             CcEEEE-ecCCCCcHHHHHHHHHHHHHH-CCCcEEEEcCCCCCCHHHHhcCCCCcccHHHHHhccCcCCCHHHhhccCCC
Confidence            589999 689999999999999999999 9999999999999988887777665544433211          1112345


Q ss_pred             CceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhh-hhhccCceEEEeeCCCcchHH
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTT-TQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~-~~l~~ad~viiv~~~~~~s~~  179 (295)
                      ++++++.+...... .....+......+.+.++.++ +.||||||||||.+....+.. .....+|.+|+|+.++..++.
T Consensus        79 ~l~vl~~~~~~~~~-~~~~~~~~~~~~~~~~l~~l~-~~yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~  156 (269)
T 1cp2_A           79 GIRCVESGGPEPGV-GCAGRGIITSINMLEQLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALY  156 (269)
T ss_dssp             GCEEEECCCCCTTS-SCHHHHHHHHHHHHHHTTCCC-TTCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHH
T ss_pred             CeeEEeCCCchhhc-cccCcchhhHHHHHHHHHhhc-cCCCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecCchhhHH
Confidence            66777655322111 000000001112333344445 789999999998765322211 112369999999999999999


Q ss_pred             HHHHHHHHHhcC----CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEE
Q 022525          180 DARKGITMFSKV----QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVI  255 (295)
Q Consensus       180 ~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~  255 (295)
                      .+.++++.++..    +.+++++|+|+++..          ......+++.+.+|.++++.||++..+.++...|+|+++
T Consensus       157 ~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~----------~~~~~~~~l~~~~~~~v~~~Ip~~~~~~~a~~~g~~v~~  226 (269)
T 1cp2_A          157 AANNISKGIQKYAKSGGVRLGGIICNSRKVA----------NEYELLDAFAKELGSQLIHFVPRSPMVTKAEINKQTVIE  226 (269)
T ss_dssp             HHHHHHHHHHHHBTTBBCEEEEEEEECCSSS----------CCHHHHHHHHHHHTCCEEEEECCCHHHHHHHHTTSCHHH
T ss_pred             HHHHHHHHHHHHHhcCCCcEEEEEeecCCcc----------hhHHHHHHHHHHcCCcccccCCCCcHHHHHHHcCCceEE
Confidence            998888877642    566789999998621          012457788888999999999999999999999999999


Q ss_pred             cCCCChHHHHHHHHHHHHHHHHH
Q 022525          256 SAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       256 ~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      +.|+++++++|.+++++|+++.+
T Consensus       227 ~~~~s~~~~~~~~l~~~l~~~~~  249 (269)
T 1cp2_A          227 YDPTCEQAEEYRELARKVDANEL  249 (269)
T ss_dssp             HCTTSHHHHHHHHHHHHHHHCCC
T ss_pred             ECCCChHHHHHHHHHHHHHhccc
Confidence            99999999999999999987643

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=100.00  E-value=1.5e-34  Score=245.22  Aligned_cols=236  Identities=25%  Similarity=0.322  Sum_probs=170.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccc-----cCCcee
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIE-----NYGVKC  104 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~-----~~~~~~  104 (295)
                      ++++|+|+|.|||+||||+|+|||..||+ .|+||++||+|+|+ +++.++|..+..++.+...-.+..     ..++++
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~-~g~~VlliD~D~~~-~~~~~l~~~~~~~l~~~l~~~~~~~~i~~~~~l~v   82 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLAR-LGKRVLLVDLDPQG-NATSGLGVRAERGVYHLLQGEPLEGLVHPVDGFHL   82 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHH-TTCCEEEEECCTTC-HHHHHTTCCCSCCHHHHHTTCCGGGTCEEETTEEE
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHH-CCCCEEEEECCCCc-CHHHHhCCCCCCCHHHHHcCCCHHHHccccCCEEE
Confidence            47999999999999999999999999999 99999999999985 677788877644443221100000     245555


Q ss_pred             eccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHH
Q 022525          105 MSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKG  184 (295)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~  184 (295)
                      ++.+........ .....  ...+.++++.   ..||||||||||+++  ......+..||.+|+|+.++..++..+.++
T Consensus        83 lp~~~~~~~~~~-~l~~~--~~~l~~~l~~---~~yD~iiiD~pp~~~--~~~~~~l~~aD~viiv~~~~~~s~~~~~~~  154 (257)
T 1wcv_1           83 LPATPDLVGATV-ELAGA--PTALREALRD---EGYDLVLLDAPPSLS--PLTLNALAAAEGVVVPVQAEYYALEGVAGL  154 (257)
T ss_dssp             ECCCTTHHHHHH-HHTTC--TTHHHHHCCC---TTCSEEEEECCSSCC--HHHHHHHHHCSEEEEEEESSTHHHHHHHHH
T ss_pred             EeCChhHHHHHH-HHhhH--HHHHHHHhcc---cCCCEEEEeCCCCCC--HHHHHHHHHCCeEEEEecCchHHHHHHHHH
Confidence            554321100000 00000  0334444433   579999999999988  445566778999999999999999988877


Q ss_pred             HHHHhc------CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE-EeecCCccccccccCCCceEEcC
Q 022525          185 ITMFSK------VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI-GEIPIEMDIRKGSDDGVPVVISA  257 (295)
Q Consensus       185 ~~~l~~------~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-~~Ip~~~~~~~a~~~g~~i~~~~  257 (295)
                      ++.++.      .+.+++++|+|+++...        ...+...+++.+.+|.+++ +.||++..+.++...|+|++++.
T Consensus       155 ~~~l~~~~~~~~~~~~~~gvv~N~~~~~~--------~~~~~~~~~l~~~~~~~~~~~~Ip~~~~~~~a~~~g~~v~~~~  226 (257)
T 1wcv_1          155 LATLEEVRAGLNPRLRLLGILVTMYDGRT--------LLAQQVEAQLRAHFGEKVFWTVIPRNVRLAEAPSFGKTIAQHA  226 (257)
T ss_dssp             HHHHHHHHHHTCTTCEEEEEEEESBCTTC--------SHHHHHHHHHHHHHGGGBCSCCCBCCHHHHHHHHHTCCHHHHC
T ss_pred             HHHHHHHHHHhCCCceEEEEEEEeECCCc--------HHHHHHHHHHHHHccccccCccCCCcHHHHHHHHcCCCHHHhC
Confidence            777754      35667899999997421        1122345667777888876 69999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHHHHHHHHHh
Q 022525          258 PDSTVSRAYGEVAVNVVNRLQELAKE  283 (295)
Q Consensus       258 ~~s~~~~~~~~l~~~l~~~~~~~~~~  283 (295)
                      |.++++++|.+++++|+++++.....
T Consensus       227 ~~~~~~~~~~~la~~l~~~~~~~~~~  252 (257)
T 1wcv_1          227 PTSPGAHAYRRLAEEVMARVQEAGSH  252 (257)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHC-----
T ss_pred             CCChHHHHHHHHHHHHHHhhcccCcc
Confidence            99999999999999999887665544

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=100.00  E-value=2.5e-33  Score=241.71  Aligned_cols=234  Identities=21%  Similarity=0.232  Sum_probs=168.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC------------cccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM------------KMVPIE   98 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~------------~~~~~~   98 (295)
                      |++|+| ++||||||||+|+|||.+||+ +|+||++||+|+|++.+..+++.....++.+..            ......
T Consensus         2 MkvIav-s~KGGvGKTT~a~nLA~~La~-~G~rVlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~i~~~   79 (289)
T 2afh_E            2 MRQCAI-YGKGGIGKSTTTQNLVAALAE-MGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAG   79 (289)
T ss_dssp             CEEEEE-EECTTSSHHHHHHHHHHHHHH-TTCCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHCEEC
T ss_pred             ceEEEE-eCCCcCcHHHHHHHHHHHHHH-CCCeEEEEecCCCCCHHHHhcCCCCCCcHHHHHhcccccccCCHHHhhccC
Confidence            699999 689999999999999999999 999999999999998887777765544433211            011122


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh-hhhhccCceEEEeeCCCcch
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT-TTQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~-~~~l~~ad~viiv~~~~~~s  177 (295)
                      ..++++++.+....... ....+......+.+.+..++ +.||||||||||.+....+. ......+|.+|+|+.++..+
T Consensus        80 ~~~l~~l~~~~~~~~~~-~~~~~~~~~~~l~~~l~~l~-~~yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s  157 (289)
T 2afh_E           80 YGGVKCVESGGPEPGVG-CAGRGVITAINFLEEEGAYE-DDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMA  157 (289)
T ss_dssp             GGGCEEEECCCCCTTTC-CHHHHHHHHHHHHHHTTCSS-TTCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHH
T ss_pred             CCCeEEEeCCCcccccc-ccchhhhHHHHHHHHHHhhc-cCCCEEEEeCCCccccchhhhhhhhhhCCEEEEEecCCHHH
Confidence            35666666553221110 00000000112222333344 78999999999876532221 11124699999999999999


Q ss_pred             HHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCce
Q 022525          178 LIDARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPV  253 (295)
Q Consensus       178 ~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i  253 (295)
                      +..+.++++.++.    .+.++.++|+|+++..      .    .....+++.+.+|.++++.||++..+.++...|+|+
T Consensus       158 ~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~------~----~~~~~~~l~~~~g~~~l~~Ip~~~~~~~a~~~g~~v  227 (289)
T 2afh_E          158 MYAANNISKGIVKYANSGSVRLGGLICNSRNTD------R----EDELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTV  227 (289)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCT------T----HHHHHHHHHHHHTSCEEEEECCCHHHHHHHHTTSCH
T ss_pred             HHHHHHHHHHHHHHHhcCCCceEEEEEecCCch------h----HHHHHHHHHHHcCccccccCCCchhHHHHHHcCCCc
Confidence            9998888877764    3667789999997521      1    124577788889999999999999999999999999


Q ss_pred             EEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          254 VISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       254 ~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      +++.|+++++++|.+|+++|+++..
T Consensus       228 ~~~~~~s~~~~~~~~la~~l~~~~~  252 (289)
T 2afh_E          228 IEYDPKAKQADEYRALARKVVDNKL  252 (289)
T ss_dssp             HHHCTTSHHHHHHHHHHHHHHHCCC
T ss_pred             eeeCCCCHHHHHHHHHHHHHHhccc
Confidence            9999999999999999999987643

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=100.00  E-value=1.4e-32  Score=243.65  Aligned_cols=249  Identities=18%  Similarity=0.149  Sum_probs=150.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC-------------------cccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK-------------------PEVTKD   91 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~-------------------~~~~~~   91 (295)
                      ||+|+|+|+||||||||+|+|||+.||+ .|+|||+||+|+|++.+..+++....                   .++.+.
T Consensus         1 MkvIav~s~KGGvGKTT~a~nLA~~LA~-~G~rVLlID~D~q~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~d~   79 (361)
T 3pg5_A            1 MRTISFFNNKGGVGKTTLSTNVAHYFAL-QGKRVLYVDCDPQCNATQLMLTEEQTESIYLDGLNDEVAERNSLAKTVYAI   79 (361)
T ss_dssp             CEEEEBCCSSCCHHHHHHHHHHHHHHHH-TTCCEEEEECCTTCTTHHHHSCHHHHHHHCCC----CGGGGGHHHHSGGGG
T ss_pred             CeEEEEEcCCCCCcHHHHHHHHHHHHHh-CCCcEEEEEcCCCCChhhhhcCchhhhhhhcccccccccccccccCCHHHH
Confidence            5899999999999999999999999999 99999999999998777666653210                   122221


Q ss_pred             C--------------cccccccCCceeeccccccCCCCCCccC-----------CchHHHHHHHHHHhccCC--CccEEE
Q 022525           92 M--------------KMVPIENYGVKCMSMGFLVPSSSPVVWR-----------GPMVMSALRKMSREVDWG--NLDILV  144 (295)
Q Consensus        92 ~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~l~~~--~yD~ii  144 (295)
                      .              ...+....+++++|.+............           .......+.++++.++ .  .|||||
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~~~~L~llp~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ll~~l~-~~~~yD~VI  158 (361)
T 3pg5_A           80 FVPLREGESQIAAEITPMRSERFGVDVLPGHPALSQIEDLMSDSWQSALGRQTGPFRRIHWAGQLAHAME-RDDRYDVIF  158 (361)
T ss_dssp             GHHHHTTCSSCCCCCCCBCCTTTTSEEECCCGGGGTHHHHHHHHHHHHHTTCHHHHTTTTHHHHHHHHHH-HTTCCSEEE
T ss_pred             HHHHhcCCCChhhcceeeccCCCCEEEEeCCchHHHHHHHHHHHhhhhhccccchhhHHHHHHHHHHHHh-hccCCCEEE
Confidence            1              1222233466666655322221110000           0000134777788776 5  999999


Q ss_pred             EcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC--------------------C------------
Q 022525          145 IDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV--------------------Q------------  192 (295)
Q Consensus       145 iD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--------------------~------------  192 (295)
                      |||||+++  ..+...+..||.+|+|+.++..++.++.++++.+++.                    .            
T Consensus       159 ID~pP~l~--~~~~~aL~~aD~viip~~~~~~s~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  236 (361)
T 3pg5_A          159 FDVGPSLG--PFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNMAEWKKYSADVEAKTRPLRLGG  236 (361)
T ss_dssp             EECCSCCS--HHHHHHHTTCSEEEEEECCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSTHHHHTSSSCTTS
T ss_pred             EECCCCcC--HHHHHHHHHCCEEEEEecCChHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCcccccccccccccc
Confidence            99999998  6677788899999999999999999988888777543                    1            


Q ss_pred             -----CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHh-----------CCcEEEeecCC-ccccccccCCCceEE
Q 022525          193 -----VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEM-----------GLKVIGEIPIE-MDIRKGSDDGVPVVI  255 (295)
Q Consensus       193 -----~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------g~~~~~~Ip~~-~~~~~a~~~g~~i~~  255 (295)
                           ++++|+|+|+++.+....+......-....+++....           ....++.||.. ..+..|+..|.|+++
T Consensus       237 ~~~~~l~~lG~v~n~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~i~~~~s~~~~aq~~~~Pi~~  316 (361)
T 3pg5_A          237 FDGEGLRYLGYTTLEYVKRRANGQEQLVGAFERFRGRFAAEAERISNSLSKHSNSTLLGHVPHMHSMPATAQDVHAPIME  316 (361)
T ss_dssp             SSSSCCEEEEEEECC-----------------TTHHHHHHHHHHHHHHSCSSCCCCEEEECC------------------
T ss_pred             ccccccceeeEEEEcchhhcCCCchhhhHHHHHHHHHHHHHHHhccccccCCCCccccccCCchhhHHHHHHHHCCCeEE
Confidence                 6779999999997644321000111122334444444           44567888854 457889999999999


Q ss_pred             cCC-----------CChHHHHHHHHHHHHHHHHHHHHHh
Q 022525          256 SAP-----------DSTVSRAYGEVAVNVVNRLQELAKE  283 (295)
Q Consensus       256 ~~~-----------~s~~~~~~~~l~~~l~~~~~~~~~~  283 (295)
                      ..+           ...+.+.|.+||..|.++++.++-|
T Consensus       317 l~~~~~~~g~~~~~~~~~~~~~~~la~~i~~~~~~~~~~  355 (361)
T 3pg5_A          317 LSSSDRVRGAQINQRNAYAEKINSVAANVYKALFPNELE  355 (361)
T ss_dssp             ----------------CCHHHHHHHHHHHHHHHCCCC--
T ss_pred             CchhcCCccHHHHHHHHHHHHHHHHHHHHHHHhCcchhh
Confidence            977           3478899999999999999877655

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=99.98  E-value=4.9e-32  Score=230.97  Aligned_cols=228  Identities=17%  Similarity=0.084  Sum_probs=152.6

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC-------Ccccccc-------Ccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ-------KPEVTKD-------MKM   94 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~-------~~~~~~~-------~~~   94 (295)
                      +++++|+|+|+||||||||+|+|||.+||  +|+||++||+|+|++....+++...       ..++.+.       ...
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la--~g~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~  102 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS--KNNKVLLIDMDTQASITSYFYEKIEKLGINFTKFNIYEILKENVDIDST  102 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT--TTSCEEEEEECTTCHHHHHTHHHHHHTTCCTTTSSHHHHHTTSSCGGGG
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH--CCCCEEEEECCCCCCHHHHhhccccccccCcccccHHHHhcCCCCHHHh
Confidence            45899999999999999999999999999  5999999999999865544432211       1111111       111


Q ss_pred             cccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC
Q 022525           95 VPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ  174 (295)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~  174 (295)
                      ......++++++.+..........  .......+..+++.++ ..||+|||||||+++  ......+..||.+|+|+.++
T Consensus       103 i~~~~~~l~~lp~~~~~~~~~~~~--~~~~~~~l~~~l~~l~-~~yD~viiD~pp~~~--~~~~~~l~~aD~vivv~~~~  177 (267)
T 3k9g_A          103 IINVDNNLDLIPSYLTLHNFSEDK--IEHKDFLLKTSLGTLY-YKYDYIVIDTNPSLD--VTLKNALLCSDYVIIPMTAE  177 (267)
T ss_dssp             CEEEETTEEEECCCGGGGGTTTCC--CTTGGGHHHHHHHTTC-TTCSEEEEEECSSCS--HHHHHHHTTCSEEEEEEESC
T ss_pred             hccCCCCEEEEeCChHHHHHHHhh--hhhHHHHHHHHHHHhh-cCCCEEEEECcCCcc--HHHHHHHHHCCeEEEEeCCC
Confidence            111236777777664332222111  1112467888888888 899999999999997  55667778899999999999


Q ss_pred             cchHHHHHHHHHHHhcCCCC-eeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCce
Q 022525          175 DVALIDARKGITMFSKVQVP-ILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPV  253 (295)
Q Consensus       175 ~~s~~~~~~~~~~l~~~~~~-~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i  253 (295)
                      ..++..+.++++.+++.+.. .+++|+|++... ..        .+...+.+ ++ +.++++.||+++.+.++...|.++
T Consensus       178 ~~s~~~~~~~~~~l~~~~~~~~~~vv~N~~~~~-~~--------~~~~~~~l-~~-~~~~~~~Ip~~~~~~~a~~~g~~~  246 (267)
T 3k9g_A          178 KWAVESLDLFNFFVRKLNLFLPIFLIITRFKKN-RT--------HKTLFEIL-KT-KDRFLGTISEREDLNRRIAENNNF  246 (267)
T ss_dssp             TTHHHHHHHHHHHHHTTTCCCCEEEEEEEECTT-CS--------CCHHHHHH-TT-STTEEEEEEC--------------
T ss_pred             hHHHHHHHHHHHHHHHHhccCCEEEEEecccCc-ch--------HHHHHHHH-hc-CcccceecCcHHHHHHHHHhcCCc
Confidence            99999999999999887543 356999999421 11        11223333 32 789999999999999999999987


Q ss_pred             EEcCCCChHHHHHHHHHHHHHHHH
Q 022525          254 VISAPDSTVSRAYGEVAVNVVNRL  277 (295)
Q Consensus       254 ~~~~~~s~~~~~~~~l~~~l~~~~  277 (295)
                      ..   .+++.++|+++++++++++
T Consensus       247 ~~---~~~~~~~~~~i~~~l~~~l  267 (267)
T 3k9g_A          247 DL---NKDYIKEYENILEIFLKKI  267 (267)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHC
T ss_pred             ch---hHHHHHHHHHHHHHHHhhC
Confidence            65   4789999999999998763

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=99.97  E-value=3.2e-32  Score=235.75  Aligned_cols=239  Identities=16%  Similarity=0.169  Sum_probs=173.1

Q ss_pred             CeEEEEee--CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc---cccccCC-Ccccccc-------Cccccc
Q 022525           31 KDVIAVAS--GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP---MMMKIDQ-KPEVTKD-------MKMVPI   97 (295)
Q Consensus        31 ~~vI~i~s--~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~---~~~g~~~-~~~~~~~-------~~~~~~   97 (295)
                      +++|+|+|  .||||||||+|+|||..||+ +|+||++||+|+|++...   ..++... ..++.+.       ..+.+ 
T Consensus        34 ~~~i~v~~~s~KGGvGKTT~a~nLA~~la~-~G~rVlliD~D~q~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~-  111 (298)
T 2oze_A           34 NEAIVILNNYFKGGVGKSKLSTMFAYLTDK-LNLKVLMIDKDLQATLTKDLAKTFKVELPRVNFYEGLKNGNLASSIVH-  111 (298)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHHH-TTCCEEEEEECTTCHHHHHHTTTSCCCCCSSCHHHHHHHTCCGGGCEE-
T ss_pred             CcEEEEEeccCCCCchHHHHHHHHHHHHHh-CCCeEEEEeCCCCCCHHHHHHHhccCCCCcccHHHHHhcCChhhhhcc-
Confidence            57899998  89999999999999999999 999999999999985422   2234432 1222211       01111 


Q ss_pred             ccCCceeeccccccCCCCCCcc--CCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc
Q 022525           98 ENYGVKCMSMGFLVPSSSPVVW--RGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD  175 (295)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~  175 (295)
                      ...+++++|.+........+..  ........+..+++.++ ..||||||||||+++  ......+..+|.+|+|+.++.
T Consensus       112 ~~~~l~vlp~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~l~-~~yD~IiiD~pp~~~--~~~~~~l~~aD~viiv~~~~~  188 (298)
T 2oze_A          112 LTDNLDLIPGTFDLMLLPKLTRSWTFENESRLLATLLAPLK-SDYDLIIIDTVPTPS--VYTNNAIVASDYVMIPLQAEE  188 (298)
T ss_dssp             SSSSEEEECCCGGGGGHHHHTTTSCHHHHHTHHHHHHGGGG-GGCSEEEEEECSSCS--HHHHHHHHHCSEEEEEECGGG
T ss_pred             cCCCeEEEeCCchHHHHHHHhhhhccccHHHHHHHHHHHHh-cCCCEEEEECCCCcc--HHHHHHHHHCCeEEEEecCcH
Confidence            1256666665532221100000  00112345888888888 899999999999988  455667778999999999999


Q ss_pred             chHHHHHHHHHHHhc------CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCC--cEE-EeecCCcccccc
Q 022525          176 VALIDARKGITMFSK------VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGL--KVI-GEIPIEMDIRKG  246 (295)
Q Consensus       176 ~s~~~~~~~~~~l~~------~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~--~~~-~~Ip~~~~~~~a  246 (295)
                      .++..+.++++.+.+      .+.+++|+|+|+++...        .......+++.+.++.  +++ +.||++..+.++
T Consensus       189 ~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~~~--------~~~~~~~~~~~~~~~~~~~v~~~~Ip~~~~~~~a  260 (298)
T 2oze_A          189 ESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLVDTDS--------ATIKSNLEELYKQHKEDNLVFQNIIKRSNKVSTW  260 (298)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCTTCEEEEEEEEESCTTC--------HHHHHHHHHHHHHTTTTCCBCSSCEECCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEECCCc--------HHHHHHHHHHHHHhccccccccccccccHHHHHH
Confidence            999999988888765      36778999999997421        1122457778888886  454 599999999999


Q ss_pred             ccCCCceEEcCCCChHHHHHHHHHHHHHHHHHHHHHh
Q 022525          247 SDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAKE  283 (295)
Q Consensus       247 ~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~~~~~~  283 (295)
                      ...|.|+++ ..+++++++|.+|+++|++++...+.+
T Consensus       261 ~~~G~~v~~-~~~~~~~~~~~~la~ei~~~~~~~~~~  296 (298)
T 2oze_A          261 SKNGITEHK-GYDKKVLSMYKNVFFEMLERIIQLENE  296 (298)
T ss_dssp             HHHCCCSSS-TTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCChhh-hcChHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999986 223468999999999999998766654

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=99.97  E-value=4.3e-32  Score=222.88  Aligned_cols=198  Identities=23%  Similarity=0.190  Sum_probs=157.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLV  111 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (295)
                      ++|+|+|+|||+||||+|+|||..|++ +| +|++||+|+|+ ++..+++. ++         .|.     .+++.    
T Consensus         1 kvI~v~s~KGGvGKTT~a~~LA~~la~-~g-~VlliD~D~q~-~~~~~~~~-~~---------l~~-----~vi~~----   58 (209)
T 3cwq_A            1 MIITVASFKGGVGKTTTAVHLSAYLAL-QG-ETLLIDGDPNR-SATGWGKR-GS---------LPF-----KVVDE----   58 (209)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHT-TS-CEEEEEECTTC-HHHHHHHH-SC---------CSS-----EEEEG----
T ss_pred             CEEEEEcCCCCCcHHHHHHHHHHHHHh-cC-CEEEEECCCCC-CHHHHhcC-CC---------CCc-----ceeCH----
Confidence            589999999999999999999999999 99 99999999997 55556654 11         111     22221    


Q ss_pred             CCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCC-CCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhc
Q 022525          112 PSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPG-TGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSK  190 (295)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~-~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~  190 (295)
                                    .    .++.+. ..||+|||||||+ .+  ......+..+|.+|+|+.++..++..+.++++.+++
T Consensus        59 --------------~----~l~~l~-~~yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~~~~~~~~~~~~~~l~~  117 (209)
T 3cwq_A           59 --------------R----QAAKYA-PKYQNIVIDTQARPED--EDLEALADGCDLLVIPSTPDALALDALMLTIETLQK  117 (209)
T ss_dssp             --------------G----GHHHHG-GGCSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSSHHHHHHHHHHHHHHHH
T ss_pred             --------------H----HHHHhh-hcCCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCCchhHHHHHHHHHHHHh
Confidence                          0    344455 7899999999999 66  455667779999999999999999999999999987


Q ss_pred             C-CCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE-EeecCCccccccccCCCceEEc-CCCC-hHHHHH
Q 022525          191 V-QVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI-GEIPIEMDIRKGSDDGVPVVIS-APDS-TVSRAY  266 (295)
Q Consensus       191 ~-~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-~~Ip~~~~~~~a~~~g~~i~~~-~~~s-~~~~~~  266 (295)
                      . +.+ +++|+|+++....      ..  .....+..+++|.+++ +.||++..+.++...|.|+.++ .|++ +++++|
T Consensus       118 ~~~~~-~~vv~N~~~~~~~------~~--~~~~~~~l~~~g~~v~~~~Ip~~~~~~~a~~~g~~v~~~~~p~~~~~~~~~  188 (209)
T 3cwq_A          118 LGNNR-FRILLTIIPPYPS------KD--GDEARQLLTTAGLPLFKRGIKRYSAFQKASLNGVVVSEVSDSKAGIAWSDY  188 (209)
T ss_dssp             TCSSS-EEEEECSBCCTTS------CH--HHHHHHHHHHTTCCBCSSCCBCCTHHHHHHHHTSCTTTSSSTTHHHHHHHH
T ss_pred             ccCCC-EEEEEEecCCccc------hH--HHHHHHHHHHcCCchhhccCCCcHHHHHHHHcCCCHHHhCCccchhHHHHH
Confidence            4 444 7899999984310      00  1234455555898888 6999999999999999999999 8999 999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 022525          267 GEVAVNVVNRLQELA  281 (295)
Q Consensus       267 ~~l~~~l~~~~~~~~  281 (295)
                      .+++++|++++..-+
T Consensus       189 ~~l~~el~~~~~~~~  203 (209)
T 3cwq_A          189 KATGKEIVEEILTLE  203 (209)
T ss_dssp             HHHHHHHHHHHTSTT
T ss_pred             HHHHHHHHHHHHhhh
Confidence            999999998765443

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=99.97  E-value=7.5e-32  Score=242.44  Aligned_cols=260  Identities=15%  Similarity=0.112  Sum_probs=175.4

Q ss_pred             hhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHH-----hCCCeEEEEEeCCCCCCcccccccCC
Q 022525           10 RLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALAS-----KCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus        10 ~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~-----~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      .+..+++.+...... ....++++|+|+|+||||||||+|+|||+.||.     ..|+||++||+|+|+ +++.++|..+
T Consensus        88 ~i~~~~~~~~~~~~~-~~~~~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q~-~l~~~l~~~~  165 (398)
T 3ez2_A           88 NIIDIYEHRGVPKYR-DRYSEAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQS-SATMFLSHKH  165 (398)
T ss_dssp             HHHHHHHHTTCCCGG-GTCCSCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTTC-HHHHHHSCHH
T ss_pred             HHHHHHHHhcccccC-cCCCCCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCC-ChhHHhCCcc
Confidence            344555444432211 234568999999999999999999999999994     169999999999986 7888887654


Q ss_pred             Ccc-----cccc------------CcccccccCCceeeccccccCCC----CC----CccCCchHHHHHHHHHHhccCCC
Q 022525           85 KPE-----VTKD------------MKMVPIENYGVKCMSMGFLVPSS----SP----VVWRGPMVMSALRKMSREVDWGN  139 (295)
Q Consensus        85 ~~~-----~~~~------------~~~~~~~~~~~~~~~~~~~~~~~----~~----~~~~~~~~~~~l~~~~~~l~~~~  139 (295)
                      ..+     +.+.            ..+.+....+++++|.+......    ..    ...........+..+++.++ +.
T Consensus       166 ~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~~~~~l~vlp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~l~-~~  244 (398)
T 3ez2_A          166 SIGIVNATSAQAMLQNVSREELLEEFIVPSVVPGVDVMPASIDDAFIASDWRELCNEHLPGQNIHAVLKENVIDKLK-SD  244 (398)
T ss_dssp             HHSSCCSCHHHHHHHCCCHHHHHHHTCEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTHHHHT-TT
T ss_pred             ccccccccHHHHHHhhccccccHHHHhhcccCCCceEecCCchhhhHHHHHHHHHHhhccccChHHHHHHHHHHHhh-cc
Confidence            211     1110            11223334667777765321000    00    00001111234456777777 89


Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHH-------HHHHHhcC--CCCeeeEEeccccCCCCCC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARK-------GITMFSKV--QVPILGLVENMSCFICPHC  210 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~-------~~~~l~~~--~~~~~~~ViN~~~~~~~~~  210 (295)
                      ||||||||||+++  ......+..||.+|+|+.|+..++..+.+       .++.+++.  +.++.|+|.|+.+...   
T Consensus       245 yD~ViiD~pp~~~--~~~~~~l~~aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~giv~~~~~~~~---  319 (398)
T 3ez2_A          245 YDFILVDSGPHLD--AFLKNALASANILFTPLPPATVDFHSSLKYVARLPELVKLISDEGCECQLATNIGFMSKLSN---  319 (398)
T ss_dssp             CSEEEEEECSCCS--HHHHHHHHHCSEEEEEECCSHHHHHHHHHHHHHHHHHHHHHHHTSCCCCCCCEEEEEEEECS---
T ss_pred             CCEEEEeCCCCcc--HHHHHHHHHCCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHHcCCCCceeEEEEEEecCCC---
Confidence            9999999999998  45667788999999999999886655444       34444443  4455666666554211   


Q ss_pred             CCCccccCCchhhHHHHHhCCcEE-EeecCCccccccccCCCceEEcCCCC---------hHHHHHHHHHHHHHHHHHHH
Q 022525          211 SEPSFIFGKGGTHRTAAEMGLKVI-GEIPIEMDIRKGSDDGVPVVISAPDS---------TVSRAYGEVAVNVVNRLQEL  280 (295)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~g~~~~-~~Ip~~~~~~~a~~~g~~i~~~~~~s---------~~~~~~~~l~~~l~~~~~~~  280 (295)
                          ........+++.+.+|.+++ +.||++..+.++...|.|++++.|.+         .+.+++.+++++|.++++.-
T Consensus       320 ----~~~~~~~~~~l~~~~g~~vl~~~IP~~~~i~~a~~~G~~v~~~~p~s~~~~~~~~~~a~~~~~~l~~~i~~~l~~~  395 (398)
T 3ez2_A          320 ----KADHKYCHSLAKEVFGGDMLDVFLPRLDGFERCGESFDTVISANPATYVGSADALKNARIAAEDFAKAVFDRIEFI  395 (398)
T ss_dssp             ----CHHHHHHHHHHHHHHGGGBCSCCEECCHHHHHHHHTTCCTTTSCTTTCSSCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ----chhHHHHHHHHHHHhcccccceeccchHHHHHHHhcCCCceeeccccccCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                11122446777888998888 79999999999999999999998863         56778889999998888764


Q ss_pred             H
Q 022525          281 A  281 (295)
Q Consensus       281 ~  281 (295)
                      +
T Consensus       396 ~  396 (398)
T 3ez2_A          396 R  396 (398)
T ss_dssp             H
T ss_pred             h
Confidence            3

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=99.97  E-value=5.6e-31  Score=237.10  Aligned_cols=240  Identities=16%  Similarity=0.119  Sum_probs=132.1

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHH------HhCCCeEEEEEeCCCCCCcccccccCCCcccccc---------
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALA------SKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD---------   91 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la------~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~---------   91 (295)
                      ...++++|+|+|+||||||||+|+|||++||      + .|+||++||+|+|+ +++.+||.....+....         
T Consensus       107 ~~~~~~vIav~s~KGGvGKTT~a~nLA~~LA~~g~~~~-~g~rVlliD~D~~~-~l~~~l~~~~~~~~~~~~~~~~l~~~  184 (403)
T 3ez9_A          107 IHKSPYVIFVVNLKGGVSKTVSTVTLAHALRVHQDLLR-HDLRILVIDLDPQA-SSTMFLDHTHSIGSILETAAQAMLNN  184 (403)
T ss_dssp             HSCSCEEEEECCC--------CHHHHHHHHHSCGGGGG-GCCCEEEEEESSSS-GGGSCC----------CCHHHHHHHT
T ss_pred             CCCCceEEEEEcCCCCchHHHHHHHHHHHHHhcchhhc-CCCeEEEEeCCCCC-ChhhhhCCCcccCcccccHHHHHHhc
Confidence            3456899999999999999999999999999      6 79999999999987 78888887653221110         


Q ss_pred             --------CcccccccCCceeeccccccCCC----CC----CccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc
Q 022525           92 --------MKMVPIENYGVKCMSMGFLVPSS----SP----VVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ  155 (295)
Q Consensus        92 --------~~~~~~~~~~~~~~~~~~~~~~~----~~----~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~  155 (295)
                              ..+.+....+++++|.+......    ..    ...........++.+++.++ +.||||||||||+++  .
T Consensus       185 ~~~~~~~~~~i~~~~~~~l~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~yD~VIID~pP~~~--~  261 (403)
T 3ez9_A          185 LDAETLRKEVIRPTIVPGVDVIPASIDDGFVASQWRELVEEHLPGQNQYEILRRNIIDRVA-DDYDFIFIDTGPHLD--P  261 (403)
T ss_dssp             CCHHHHHHTTSEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTGGGSG-GGCSEEEEEECSSCS--H
T ss_pred             ccccccHHHHHhhcccCCceEEecCcchhhHHHHHHHHHHHhccccchHHHHHHHHHHHHh-hcCCEEEEECCCCcc--H
Confidence                    11222334567777665321000    00    00000111223456677777 899999999999998  5


Q ss_pred             hhhhhhccCceEEEeeCCCcchHHHHHH-------HHHHHhcCC--CCeeeE--EeccccCCCCCCCCCccccCCchhhH
Q 022525          156 LTTTQTLQLSGALIVSTPQDVALIDARK-------GITMFSKVQ--VPILGL--VENMSCFICPHCSEPSFIFGKGGTHR  224 (295)
Q Consensus       156 ~~~~~l~~ad~viiv~~~~~~s~~~~~~-------~~~~l~~~~--~~~~~~--ViN~~~~~~~~~~~~~~~~~~~~~~~  224 (295)
                      .....+..||.+|+|+.|+..++..+.+       .++.+++.+  .++.|+  ++|+++.       .  .......++
T Consensus       262 ~~~~al~~aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~l~giv~vl~~~~~-------~--~~~~~~~~~  332 (403)
T 3ez9_A          262 FLLNGLAASDLLLTPTPPAQVDFHSTLKYLTRLPEMLEQLEEEGVEPRLSASIGFMSKMTG-------K--RDHETSHSL  332 (403)
T ss_dssp             HHHHHHHHCSEEEEEECSSHHHHHHHHHHHHTHHHHHHHHHHTTCCCCCCEEEEEECC----------C--HHHHHHHHH
T ss_pred             HHHHHHHHCCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHhcCCCCceeEEEEEEeccCC-------c--hhHHHHHHH
Confidence            5667788999999999999887655443       444444443  344444  4555431       1  111234567


Q ss_pred             HHHHhCCcEE-EeecCCccccccccCCCceEEcCCCC---------hHHHHHHHHHHHHHHHHHHH
Q 022525          225 TAAEMGLKVI-GEIPIEMDIRKGSDDGVPVVISAPDS---------TVSRAYGEVAVNVVNRLQEL  280 (295)
Q Consensus       225 ~~~~~g~~~~-~~Ip~~~~~~~a~~~g~~i~~~~~~s---------~~~~~~~~l~~~l~~~~~~~  280 (295)
                      +.+.+|.+++ +.||+++.+.++...|.|++++.|.+         .+.++|.+++++|.++++..
T Consensus       333 ~~~~~g~~vl~~~IP~~~~v~~a~~~G~~v~~~~p~s~~~~~~~~~~~~~~~~~la~~i~~~i~~~  398 (403)
T 3ez9_A          333 AREVYASNILDSSLPRLDGFERCGESFDTVISANPQSYPGSAEALKKARTEAERFTKAVFDRIEFV  398 (403)
T ss_dssp             HHHHHTTSEECCC-----------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHhhhceeCCchHHHHHHHhcCCCceecCCcccccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7778999988 79999999999999999999988753         46678889999998888764

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=99.97  E-value=1.4e-31  Score=230.22  Aligned_cols=228  Identities=15%  Similarity=0.086  Sum_probs=159.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCc-eeeccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGV-KCMSMG  108 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~-~~~~~~  108 (295)
                      |+++|+|+|.||||||||+|+|||..||+ .|++|++||+|+.+++++.+++....  +.+... .+ ...++ ++++.+
T Consensus         3 M~kvI~v~s~KGGvGKTT~a~nLA~~La~-~G~~VlliD~D~~q~~l~~~l~~~~~--~~~~~~-~~-~~~~l~~vl~~~   77 (286)
T 2xj4_A            3 ETRVIVVGNEKGGAGKSTIAVHLVTALLY-GGAKVAVIDLDLRQRTSARFFENRRA--WLDNKK-IE-LPEPLALNLSDN   77 (286)
T ss_dssp             -CEEEEECCSSSCTTHHHHHHHHHHHHHH-TTCCEEEEECCTTTCHHHHHHHHHHH--HHHHHT-CC-CCCCEEECSSSC
T ss_pred             CCeEEEEEcCCCCCCHHHHHHHHHHHHHH-CCCcEEEEECCCCCCCHHHHhCCChh--HhHhcc-cc-CCCchheEeeCC
Confidence            46899999999999999999999999999 99999999999955688877775431  100000 00 01233 444431


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHH-
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITM-  187 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~-  187 (295)
                      ...    .....+......+..+++.++ ..||||||||||+++  ......+..||.+|+|+.++..++..+.++++. 
T Consensus        78 ~~~----~~~~~~~~~~~~l~~~l~~l~-~~yD~viiD~p~~~~--~~~~~~l~~aD~viiv~~~~~~~~~~~~~~~~~~  150 (286)
T 2xj4_A           78 DVA----LAERPEEEQVAGFEAAFARAM-AECDFILIDTPGGDS--AITRMAHGRADLVVTPMNDSFVDFDMLGTVDPVT  150 (286)
T ss_dssp             HHH----HTTSCHHHHHHHHHHHHHHHH-HHCSEEEEECCSSCC--HHHHHHHHTCSEEEEEEESSHHHHTTTEEECTTT
T ss_pred             CCC----CcChhhhhhHHHHHHHHHHHH-hcCCEEEEcCCCCcc--HHHHHHHHHCCEEEEEEcCCccHHHHHHHHHHHh
Confidence            100    001112233567888888888 899999999999986  556677889999999999998887665443333 


Q ss_pred             ------------H---h-------cCC-CCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccc
Q 022525          188 ------------F---S-------KVQ-VPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIR  244 (295)
Q Consensus       188 ------------l---~-------~~~-~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~  244 (295)
                                  +   +       ..+ .+ +++|+|+++....    .....-.+.+++.++++|..+.+.||++..+.
T Consensus       151 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~~vV~N~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~~~Ip~~~~~~  225 (286)
T 2xj4_A          151 LELTKPSLYSLTVWEGRKQRALSGQRQAMD-WVVLRNRLATTEA----RNRKRLEDRLNALAKRVGFRIGPGLRDRVIYR  225 (286)
T ss_dssp             CCEEEECHHHHHHHHHHHHHHHHCSSCCCE-EEEEEECCTTCCG----GGHHHHHHHHHHHHHHHCCEEEECCCCCHHHH
T ss_pred             hhccccchhhhhhhcchhhhhhccCCcccc-EEEEEeeecCCCc----chhHHHHHHHHHHHHHcCCccCCCCCchHHHH
Confidence                        3   2       223 33 5799999974210    00000001122333348887778999999999


Q ss_pred             ccccCCCceEEcCC----------CChHHHHHHHHHHHHH
Q 022525          245 KGSDDGVPVVISAP----------DSTVSRAYGEVAVNVV  274 (295)
Q Consensus       245 ~a~~~g~~i~~~~~----------~s~~~~~~~~l~~~l~  274 (295)
                      ++...|+|++++.|          +++++++|.+|+++|.
T Consensus       226 ~a~~~g~~v~~~~~~~~~~~~~~~~s~~~~~~~~la~~l~  265 (286)
T 2xj4_A          226 ELFPFGLTIADLSPQVRPVPVSLQHLAARQELRALMHSLG  265 (286)
T ss_dssp             HHGGGTCCGGGCBTTBCCSCCCSTTHHHHHHHHHHHHHTT
T ss_pred             HHHHcCCCHHHhCccccccccccccchHHHHHHHHHHHhC
Confidence            99999999999998          8899999999999985

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=99.97  E-value=3.9e-30  Score=220.40  Aligned_cols=190  Identities=15%  Similarity=0.197  Sum_probs=154.0

Q ss_pred             hhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC
Q 022525            5 FRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      +.+.|+++.||+++.+....    ..+++|+|+|+|||+||||+|+|||..||+ .|+||++||+|++.++++.+|+..+
T Consensus        70 ~~~~Ea~r~lrt~l~~~~~~----~~~kvI~vts~kgG~GKTtva~nLA~~lA~-~G~rVLLID~D~~~~~l~~~~~~~~  144 (286)
T 3la6_A           70 DLAIEAIRSLRTSLHFAMMQ----AQNNVLMMTGVSPSIGMTFVCANLAAVISQ-TNKRVLLIDCDMRKGYTHELLGTNN  144 (286)
T ss_dssp             CHHHHHHHHHHHHHHHHSTT----TTCCEEEEEESSSSSSHHHHHHHHHHHHHT-TTCCEEEEECCTTTCCHHHHHTCCC
T ss_pred             CHHHHHHHHHHHHHhhhccC----CCCeEEEEECCCCCCcHHHHHHHHHHHHHh-CCCCEEEEeccCCCCCHHHHhCCCC
Confidence            34679999999999986533    336999999999999999999999999999 9999999999999999999999988


Q ss_pred             Ccccccc--------CcccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch
Q 022525           85 KPEVTKD--------MKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL  156 (295)
Q Consensus        85 ~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~  156 (295)
                      ..++.+.        ..+.+....++++++.+...+...     +......+..+++.++ ..||+|||||||.+... .
T Consensus       145 ~~gl~~~l~~~~~~~~~i~~~~~~~l~vl~~g~~~~~~~-----ell~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~-d  217 (286)
T 3la6_A          145 VNGLSEILIGQGDITTAAKPTSIAKFDLIPRGQVPPNPS-----ELLMSERFAELVNWAS-KNYDLVLIDTPPILAVT-D  217 (286)
T ss_dssp             TTCHHHHHHTSSCTTTTCEECSSTTEEEECCCSCCSCHH-----HHHTSHHHHHHHHHHH-HHCSEEEEECCCTTTCT-H
T ss_pred             CCCHHHHccCCCCHHHheeccCCCCEEEEeCCCCCCCHH-----HHhchHHHHHHHHHHH-hCCCEEEEcCCCCcchH-H
Confidence            7766543        122333446778887765433221     2223478889999998 89999999999987642 2


Q ss_pred             hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          157 TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       157 ~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      .......+|.+|+|+.++..+...+.+.++.+++.+.+++|+|+|+++..
T Consensus       218 a~~l~~~aD~vllVv~~~~~~~~~~~~~~~~l~~~g~~~~GvVlN~v~~~  267 (286)
T 3la6_A          218 AAIVGRHVGTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSIFRR  267 (286)
T ss_dssp             HHHHTTTCSEEEEEEETTTSBHHHHHHHHHHHHHTTCCCCEEEEEEECCC
T ss_pred             HHHHHHHCCeEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEcCcccc
Confidence            23344568999999999999999999999999999999999999999853

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=99.96  E-value=1.2e-29  Score=216.12  Aligned_cols=189  Identities=21%  Similarity=0.288  Sum_probs=150.5

Q ss_pred             hhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC
Q 022525            5 FRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      +.+.|+++.||+++.+....    ..+++|+|+|.|||+||||+|+|||..||+ .|+||++||+|++.|+++.+|+..+
T Consensus        60 ~~~~Ea~r~lrt~l~~~~~~----~~~kvI~vts~kgG~GKTt~a~nLA~~lA~-~G~rVLLID~D~~~~~l~~~~~~~~  134 (271)
T 3bfv_A           60 SPISEKFRGIRSNIMFANPD----SAVQSIVITSEAPGAGKSTIAANLAVAYAQ-AGYKTLIVDGDMRKPTQHYIFNLPN  134 (271)
T ss_dssp             SHHHHHHHHHHHHHHHSSTT----CCCCEEEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCSSSCCHHHHTTCCC
T ss_pred             CHHHHHHHHHHHHHHhhccC----CCCeEEEEECCCCCCcHHHHHHHHHHHHHh-CCCeEEEEeCCCCCccHHHHcCCCC
Confidence            45679999999999987532    337999999999999999999999999999 9999999999999999999999887


Q ss_pred             CccccccC--------cccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch
Q 022525           85 KPEVTKDM--------KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL  156 (295)
Q Consensus        85 ~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~  156 (295)
                      ..++.+..        .+.+....++++++.+...+...     +......+..+++.++ ..||+|||||||.+... .
T Consensus       135 ~~gl~~~L~~~~~l~~~i~~~~~~~l~vl~~g~~~~~~~-----ell~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~-d  207 (271)
T 3bfv_A          135 NEGLSSLLLNWSTYQDSIISTEIEDLDVLTSGPIPPNPS-----ELITSRAFANLYDTLL-MNYNFVIIDTPPVNTVT-D  207 (271)
T ss_dssp             SSSHHHHHTTSSCHHHHEEECSSTTEEEECCCSCCSCHH-----HHHTSHHHHHHHHHHH-HHCSEEEEECCCTTTCS-H
T ss_pred             CCCHHHHhCCCCCHHHcEEeCCCCCEEEEECCCCCCCHH-----HHhChHHHHHHHHHHH-hCCCEEEEeCCCCchHH-H
Confidence            76655431        12222336777777664332221     1122467888888888 89999999999987632 2


Q ss_pred             hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          157 TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       157 ~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ....+..+|.+|+|+.++..+...+.+.++.+++.+.+++|+|+|+++.
T Consensus       208 ~~~l~~~aD~vilVv~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~~~  256 (271)
T 3bfv_A          208 AQLFSKFTGNVVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLNRMPK  256 (271)
T ss_dssp             HHHHHHHHCEEEEEEETTSCCHHHHHHHHHHHHTTTCEEEEEEEEEECC
T ss_pred             HHHHHHHCCEEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEeCCcC
Confidence            2233346899999999999999999999999999999999999999984

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=99.96  E-value=9.4e-29  Score=213.46  Aligned_cols=190  Identities=14%  Similarity=0.205  Sum_probs=150.4

Q ss_pred             hhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC
Q 022525            5 FRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      +.+.|+++.||+++.+....    ..+++|+|+|.|||+||||+|+|||..||+ .|+||++||+|++.++++.+|+..+
T Consensus        82 ~~~~Ea~r~lrt~l~~~~~~----~~~kvI~vts~kgG~GKTtva~nLA~~lA~-~G~rVLLID~D~r~~~l~~~~~~~~  156 (299)
T 3cio_A           82 DSAVEAVRALRTSLHFAMME----TENNILMITGATPDSGKTFVSSTLAAVIAQ-SDQKVLFIDADLRRGYSHNLFTVSN  156 (299)
T ss_dssp             CHHHHHHHHHHHHHHHHTSS----CSCCEEEEEESSSSSCHHHHHHHHHHHHHH-TTCCEEEEECCTTTCCHHHHTTCCC
T ss_pred             CHHHHHHHHHHHHHHHhccC----CCCeEEEEECCCCCCChHHHHHHHHHHHHh-CCCcEEEEECCCCCccHHHHcCCCC
Confidence            34568999999999876532    236999999999999999999999999999 9999999999999999999999887


Q ss_pred             CccccccC--------cccccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch
Q 022525           85 KPEVTKDM--------KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL  156 (295)
Q Consensus        85 ~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~  156 (295)
                      ..++.+..        .+.+....++++++.+...+...     +......+..+++.++ ..||+|||||||.+.... 
T Consensus       157 ~~gl~~~L~~~~~l~~~i~~~~~~~l~vl~~g~~~~~~~-----ell~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~d-  229 (299)
T 3cio_A          157 EHGLSEYLAGKDELNKVIQHFGKGGFDVITRGQVPPNPS-----ELLMRDRMRQLLEWAN-DHYDLVIVDTPPMLAVSD-  229 (299)
T ss_dssp             SSSHHHHHTTSSCHHHHCEEETTTTEEEECCCSCCSCHH-----HHHTSHHHHHHHHHHH-HHCSEEEEECCCTTTCTH-
T ss_pred             CCCHHHHCcCCCCHHHhhhccCCCCEEEEECCCCCCCHH-----HHhCHHHHHHHHHHHH-hCCCEEEEcCCCCchhHH-
Confidence            76665431        12223346778887764333221     1123467888888888 899999999999876322 


Q ss_pred             hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          157 TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       157 ~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      .......+|.+|+|+.++..+...+...++.+++.+.+++|+|+|+++..
T Consensus       230 ~~~l~~~ad~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~~~~  279 (299)
T 3cio_A          230 AAVVGRSVGTSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGVIKR  279 (299)
T ss_dssp             HHHHGGGCSEEEEEEETTTSCTTHHHHHHHHHHHTTCCCCCEEEEECCCC
T ss_pred             HHHHHHHCCEEEEEEcCCCChHHHHHHHHHHHHhCCCCeEEEEEeCCccC
Confidence            22333469999999999999999999999999999999999999999853

>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=99.94  E-value=1.2e-26  Score=206.59  Aligned_cols=197  Identities=15%  Similarity=0.208  Sum_probs=137.8

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcc-------------
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKM-------------   94 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~-------------   94 (295)
                      ...+++|+|+|+||||||||+|+|||..||+ +|+||++||+| ..++++.++|..+..++.+....             
T Consensus       140 ~~~~kvIav~s~KGGvGKTT~a~nLA~~La~-~g~rVlliD~D-~~~~l~~~lg~~~~~~l~d~l~~~~~~~~~~~~~l~  217 (373)
T 3fkq_A          140 NDKSSVVIFTSPCGGVGTSTVAAACAIAHAN-MGKKVFYLNIE-QCGTTDVFFQAEGNATMSDVIYSLKSRKANLLLKLE  217 (373)
T ss_dssp             TTSCEEEEEECSSTTSSHHHHHHHHHHHHHH-HTCCEEEEECC-TTCCHHHHCCCSCSCCHHHHHHHHHSCCSCHHHHHH
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHHHHHHh-CCCCEEEEECC-CCCCHHHHcCCCCCCCHHHHHhhhhcccccccccHH
Confidence            3458999999999999999999999999999 89999999999 66799999999887666543111             


Q ss_pred             --cccccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhcc-CCCccEEEEcCCCCCCccchhhhhhccCceEEEee
Q 022525           95 --VPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD-WGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVS  171 (295)
Q Consensus        95 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~-~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~  171 (295)
                        ......++++++.+.....      ........+..+++.++ +..||+|||||||+.+.  .....+..||.+++|+
T Consensus       218 ~~i~~~~~~l~~l~~~~~~~~------~~~~~~~~~~~ll~~l~~~~~yD~VIID~p~~~~~--~~~~~l~~aD~vivv~  289 (373)
T 3fkq_A          218 SCIKQSQEGVSYFSSTKVALD------ILEISYADIDTLIGNIQGMDNYDEIIVDLPFSLEI--EKLKLLSKAWRIIVVN  289 (373)
T ss_dssp             HTCEECTTSCEECCCCSSGGG------GGGCCHHHHHHHHHHHHHTSCCSEEEEECCCCCCH--HHHHHHTTCSEEEEEE
T ss_pred             HHhhcCCCCEEEecCCCChHh------HHhCCHHHHHHHHHHHHhcCCCCEEEEeCCCCCCH--HHHHHHHHCCEEEEEe
Confidence              1112355666655431111      11123455556665554 25899999999999884  4556677999999999


Q ss_pred             CCCcch---HHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccc
Q 022525          172 TPQDVA---LIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRK  245 (295)
Q Consensus       172 ~~~~~s---~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~  245 (295)
                      .|+..+   +..+.+.++.+... .+ +++|.|+........         ...+++++..++++++.||+++....
T Consensus       290 ~~~~~s~~~l~~~~~~l~~l~~~-~~-~~vv~N~~~v~~~~~---------~~~~~fl~~~~l~~lG~IP~D~~~~~  355 (373)
T 3fkq_A          290 DGSQLSNYKFMRAYESVVLLEQN-DD-INIIRNMNMIYNKFS---------NKNSEMLSNISIKTIGGAPRYEHATV  355 (373)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTS-TT-CCCGGGEEEEECSCC---------TTTCCCCCSCSCEEEEECCCCTTCCH
T ss_pred             cCCchHHHHHHHHHHHHHHhccc-CC-cEEEehhHHHHHHHH---------HHHHHHhhcCCccceeecCCCCCcCH
Confidence            999988   56666666666542 22 556666653221110         12334444568999999999988643

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=99.93  E-value=5.7e-27  Score=206.58  Aligned_cols=231  Identities=18%  Similarity=0.206  Sum_probs=143.1

Q ss_pred             hhhhhhhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCC
Q 022525            5 FRIFTRLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQ   84 (295)
Q Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~   84 (295)
                      +.+.|.++.+|+++.+....    ..+++|+|+|+||||||||+|+|||..+|+ .|+||++||+|++ ++++.+||.+.
T Consensus         3 s~~~E~~r~lrt~~~~~~~~----~~~~~i~v~sgKGGvGKTTvA~~LA~~lA~-~G~rVLlvD~D~~-~~l~~~l~~~~   76 (349)
T 3ug7_A            3 SKIKDSINSLRGITEKKLEK----KDGTKYIMFGGKGGVGKTTMSAATGVYLAE-KGLKVVIVSTDPA-HSLRDIFEQEF   76 (349)
T ss_dssp             -------CTTHHHHHHHHHS----SCSCEEEEEECSSSTTHHHHHHHHHHHHHH-SSCCEEEEECCTT-CHHHHHHCSCC
T ss_pred             HHHHHHHHHHhhhHHHhhcc----cCCCEEEEEeCCCCccHHHHHHHHHHHHHH-CCCeEEEEeCCCC-CCHHHHhCCCC
Confidence            57789999999999876533    237999999999999999999999999999 9999999999996 58889998864


Q ss_pred             CccccccC---c-----ccccc----------cCCceeeccccccCCC--CCCccCCchHHHHHHHHHHhccCCCccEEE
Q 022525           85 KPEVTKDM---K-----MVPIE----------NYGVKCMSMGFLVPSS--SPVVWRGPMVMSALRKMSREVDWGNLDILV  144 (295)
Q Consensus        85 ~~~~~~~~---~-----~~~~~----------~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~l~~~~yD~ii  144 (295)
                      ........   .     ..+..          ......++.+......  .....++......+..+.+.++...||+||
T Consensus        77 ~~~~~~v~g~~~l~~~~id~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~pg~~e~~~~~~l~~~~~~~~yD~VI  156 (349)
T 3ug7_A           77 GHEPTKVKGYDNLYVVEIDPQKAMEEYKEKLKAQIEENPFLGEMLEDQLEMAALSPGTDESAAFDVFLKYMDSNEFDVVI  156 (349)
T ss_dssp             CSSCEECTTCSSEEEEECCHHHHHHHHHHHHHHHGGGCHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHCCSCSEEE
T ss_pred             CcCccccccccceeeeccCHHHHHHHHHHHHHHHHHHhcccchhhHHHHHHhccCCCHHHHHHHHHHHHHHHhCCCCEEE
Confidence            33211110   0     00000          0000000000000000  000001111112222333333337899999


Q ss_pred             EcCCCCCCccc-hhhh----------------------------------------------------------hhc--c
Q 022525          145 IDMPPGTGDAQ-LTTT----------------------------------------------------------QTL--Q  163 (295)
Q Consensus       145 iD~~~~~~~~~-~~~~----------------------------------------------------------~l~--~  163 (295)
                      |||||+..... +...                                                          .+.  .
T Consensus       157 iDtpPt~~tlrlL~~p~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~d~~  236 (349)
T 3ug7_A          157 FDTAPTGHTLRFLGMPEVMDKYMTKLIKLRKQMSGFMKMMKKLLPFGGKDEDIDYDKMLEELEKMKERIVRARNILSDPE  236 (349)
T ss_dssp             ECSCCCTTGGGGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCC-------CHHHHHHHHHHHHHHHHHHHHHHTCTT
T ss_pred             ECCCCChHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccCCchHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            99999653210 0000                                                          000  1


Q ss_pred             CceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCC---CCCCCccccCCchhhHHHHHhCCcEEEeecCC
Q 022525          164 LSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICP---HCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       164 ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~---~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                      .+.+++|+.|+..++.++.+.++.+++.++++.|+|+|++.....   .+....... ....+++.+.++...++.||..
T Consensus       237 ~~~~vlV~~p~~~~~~e~~r~~~~l~~~~i~v~gvV~N~~~~~~~~~~~~~~~~~~~-~~~l~~i~~~~~~~~l~~iPl~  315 (349)
T 3ug7_A          237 RTAFRLVVIPEEMSILESERAMKALQKYGIPIDAVIVNQLIPEDVQCDFCRARRELQ-LKRLEMIKEKFGDKVIAYVPLL  315 (349)
T ss_dssp             TEEEEEEECSSHHHHHHHHHHHHHHHHTTCCEEEEEEEEECCSCCCSHHHHHHHHHH-HHHHHHHHHHSTTSEEEEEECC
T ss_pred             CceEEEEECCCccHHHHHHHHHHHHHHCCCCeeEEEEcCCccccCCCchHHHHHHHH-HHHHHHHHHHcCCCcEEEecCC
Confidence            478999999999999999999999999999999999999975421   111111111 3457888889999999999987


Q ss_pred             cc
Q 022525          241 MD  242 (295)
Q Consensus       241 ~~  242 (295)
                      +.
T Consensus       316 ~~  317 (349)
T 3ug7_A          316 RT  317 (349)
T ss_dssp             SS
T ss_pred             CC
Confidence            65

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=99.91  E-value=2.1e-24  Score=188.53  Aligned_cols=209  Identities=17%  Similarity=0.260  Sum_probs=128.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCccc------c--------
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMV------P--------   96 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~------~--------   96 (295)
                      +++|+|+|+||||||||+|+|||..+|+ .|+||++||+|+ .++++.+||.+............      +        
T Consensus        13 m~~i~v~sgKGGvGKTTvA~~LA~~lA~-~G~rVLlvD~D~-~~~l~~~l~~~~~~~~~~v~~~l~~~~~d~~~~~~~~~   90 (324)
T 3zq6_A           13 KTTFVFIGGKGGVGKTTISAATALWMAR-SGKKTLVISTDP-AHSLSDSLEREIGHTPTKITENLYAVEIDPEVAMEEYQ   90 (324)
T ss_dssp             BCEEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEECCS-SCCHHHHHTSCCCSSCEEEETTEEEEECCHHHHHHHHH
T ss_pred             CeEEEEEeCCCCchHHHHHHHHHHHHHH-CCCcEEEEeCCC-CcCHHHHhCCcCCCCCccCCCCceeeccChHHHHHHHH
Confidence            4899999999999999999999999999 999999999999 46889999886433222110000      0        


Q ss_pred             --cccCCceeecccc-ccCCCCCC--ccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc------c-h--------
Q 022525           97 --IENYGVKCMSMGF-LVPSSSPV--VWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA------Q-L--------  156 (295)
Q Consensus        97 --~~~~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~------~-~--------  156 (295)
                        ........++.+. ........  ..+.......+..+.+.+.+..||+|||||||.....      . +        
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~pg~~e~~~~~~~~~~~~~~~yD~VIiDtpPt~~~l~lL~~p~~~~~~~~~l~  170 (324)
T 3zq6_A           91 AKLQEQAAMNPGMGLDMLQDQMDMASMSPGIDEAAAFDQFLRYMTTDEYDIVIFDTAPTGHTLRLLSFPEIMDSWVGKMI  170 (324)
T ss_dssp             HHC---------------------CTTSTTHHHHHHHHHHHHHHHHCCCSEEEEECCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccchhhhHHHHHHhccCCChHHHHHHHHHHHHHHhCCCCEEEECCCCCHHHHHHHHhHHHHHHHHHHHH
Confidence              0000001111110 00000000  0111111222333333322378999999999943100      0 0        


Q ss_pred             ------------------------------------------hhhhhcc--CceEEEeeCCCcchHHHHHHHHHHHhcCC
Q 022525          157 ------------------------------------------TTTQTLQ--LSGALIVSTPQDVALIDARKGITMFSKVQ  192 (295)
Q Consensus       157 ------------------------------------------~~~~l~~--ad~viiv~~~~~~s~~~~~~~~~~l~~~~  192 (295)
                                                                ....+..  .+.+++|+.|+..++.++.+.++.+++.+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~d~~~~~~vlV~~p~~~~~~~~~~~~~~l~~~g  250 (324)
T 3zq6_A          171 KIRRQIGSMAKAFKNILPFMGDEEEEDRALQDMEATKKQINAAREVMSDPERTSFKMVVIPEEMSIYESERAMKALEKYS  250 (324)
T ss_dssp             HHHHHHHHHHTTTTTTSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhhhccccCCcccchHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEEeCCcccHHHHHHHHHHHHHHCC
Confidence                                                      0001111  35899999999999999999999999999


Q ss_pred             CCeeeEEeccccCCCC---CCCCCccccCCchhhHHHHHhCCcEEEeecCCcc
Q 022525          193 VPILGLVENMSCFICP---HCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMD  242 (295)
Q Consensus       193 ~~~~~~ViN~~~~~~~---~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~  242 (295)
                      +++.|+|+|++.....   .+....... ...++++.+.++...+..||..+.
T Consensus       251 i~v~gvV~N~~~~~~~~~~~~~~~~~~~-~~~l~~i~~~~~~~~~~~iPl~~~  302 (324)
T 3zq6_A          251 IHADGVIVNQVLPEESDCEFCNARRKLQ-QERLKQIREKFSDKVVAEVPLLKK  302 (324)
T ss_dssp             CCEEEEEEEEECCSCCCSHHHHHHHHHH-HHHHHHHHHHTTTSEEEEEECCSS
T ss_pred             CCccEEEEcCCccccCCChHHHHHHHHH-HHHHHHHHHHcCCCcEEEecCCCC
Confidence            9999999999975421   111111111 234778888888888889997654

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=99.88  E-value=1.9e-23  Score=182.69  Aligned_cols=221  Identities=14%  Similarity=0.092  Sum_probs=129.6

Q ss_pred             hhhccccccccCCCccccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc---
Q 022525           10 RLGGVRYYAAFGSKDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP---   86 (295)
Q Consensus        10 ~~~~l~~~~~~~~~~~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~---   86 (295)
                      .++.+|+++.+...     ...++|+|+|+||||||||+|+|||..||+ .|+||++||+|++ ++++.+||.....   
T Consensus         2 ~~r~lr~~l~~~~~-----~~~~~i~v~sgkGGvGKTTva~~LA~~lA~-~G~rVllvD~D~~-~~l~~~l~~~~~~~~~   74 (329)
T 2woo_A            2 SFDPLPGTLENLLE-----QTSLKWIFVGGKGGVGKTTTSCSLAIQMSK-VRSSVLLISTDPA-HNLSDAFGTKFGKDAR   74 (329)
T ss_dssp             -----CCSTHHHHH-----CTTCCEEEEECSSSSSHHHHHHHHHHHHHT-SSSCEEEEECCTT-CHHHHHHSSCCCSSCE
T ss_pred             CcchhhccHHHHhc-----CCCCEEEEEeCCCCCcHHHHHHHHHHHHHH-CCCeEEEEECCCC-cCHHHHhCCcCCCCCe
Confidence            45677777765422     225889999999999999999999999999 9999999999999 7888888875321   


Q ss_pred             ---cccccCc--cccc---ccC--C-----ce-eeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCC
Q 022525           87 ---EVTKDMK--MVPI---ENY--G-----VK-CMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPG  150 (295)
Q Consensus        87 ---~~~~~~~--~~~~---~~~--~-----~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~  150 (295)
                         ++.+...  ..+.   ...  .     +. +++.. +.  ......++......+..+.+.+.+..||+|||||||.
T Consensus        75 ~~~g~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-l~--~l~~~~pg~~e~~~~~~~~~~l~~~~yD~ViiDtpPt  151 (329)
T 2woo_A           75 KVPGFDNLSAMEIDPNLSIQEMTEQADQQNPNNPLSGM-MQ--DLAFTIPGIDEALAFAEILKQIKSMEFDCVIFDTAPT  151 (329)
T ss_dssp             ECTTCSSEEEEECCHHHHHHHHHHTC--------CCHH-HH--HHHTTSTTHHHHHHHHHHHHHHHHTCCSEEEEECCSS
T ss_pred             eccCCCCeeEEecCHHHHHHHHHHHHhhhhHHHHhhHH-HH--HHhcCCCCHHHHHHHHHHHHHHHhCCCCEEEECCCCc
Confidence               1111100  0000   000  0     00 01100 00  0000112222223455555555536899999999993


Q ss_pred             -CCccchhh----------------------hh-------------------------------hc--cCceEEEeeCCC
Q 022525          151 -TGDAQLTT----------------------TQ-------------------------------TL--QLSGALIVSTPQ  174 (295)
Q Consensus       151 -~~~~~~~~----------------------~~-------------------------------l~--~ad~viiv~~~~  174 (295)
                       ..-..+..                      ..                               +.  ..+.+++|+.|+
T Consensus       152 g~~l~lL~~p~~~~~~l~~l~~~~~~~~~~~~~l~~~~g~~~~~d~~~~~l~~~~~~~~~~~~~l~d~~~t~~vlV~~pe  231 (329)
T 2woo_A          152 GHTLRFLNFPTVLEKALGKLGGLSSRFGPMINQMGSIMGVNANEQDLFGKMESMRANISEVNKQFKNPDLTTFVCVCISE  231 (329)
T ss_dssp             SCTTTGGGHHHHHHHHHHHHHTSCSSCHHHHHHHHHHHC-----CCTTHHHHHHHHHHHHHHHHHTCTTTEEEEEEEESS
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEeCCC
Confidence             21000000                      00                               00  124799999999


Q ss_pred             cchHHHHHHHHHHHhcCCCCeeeEEeccccCCCC-CCCCC--ccccCCchhhHHHHHhCCcEEEeecCC
Q 022525          175 DVALIDARKGITMFSKVQVPILGLVENMSCFICP-HCSEP--SFIFGKGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       175 ~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                      ..++.++.+.++.+++.++++.++|+|++..... .+...  ....+...++++.+.++...+..||.-
T Consensus       232 ~~~i~ea~~~~~~L~~~gi~v~gvVvN~~~~p~~~~~~~~~~~~~~q~~~l~~i~~~~~~~~~~~vP~~  300 (329)
T 2woo_A          232 FLSLYETERMIQELTSYEIDTHNIVVNQLLLDPNTTCPQCMARRKMQQKYLAQIEELYEDFHVVKVPQV  300 (329)
T ss_dssp             HHHHHHHHHHHHHHHHHTCEEEEEEEEEECCCSSCCCHHHHHHHHHHHHHHHHHHHHTTTSEEEEEECC
T ss_pred             cchHHHHHHHHHHHHHCCCCCCEEEEeCCcCcccccCHHHHHHHHHHHHHHHHHHHhcCCCCEEEecCC
Confidence            9999999999999999999999999999973111 00000  000112335567777754444677754

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=99.88  E-value=5.4e-23  Score=181.26  Aligned_cols=171  Identities=15%  Similarity=0.181  Sum_probs=112.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH--HhCCCeEEEEEeCCCCCCcccccccCCCcc------ccccCc--ccccc--
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA--SKCQLKVGLLDADVYGPSVPMMMKIDQKPE------VTKDMK--MVPIE--   98 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la--~~~g~~VlliD~D~~~~~~~~~~g~~~~~~------~~~~~~--~~~~~--   98 (295)
                      .++|+|+|+||||||||+|+|||..||  + .|+||++||+|++ ++++.+||.+....      +.+...  +.+..  
T Consensus        17 ~~~i~v~sgKGGvGKTTvaanLA~~lA~~~-~G~rVLLvD~D~~-~~l~~~lg~~~~~~~~~v~gl~~l~~~~id~~~~l   94 (354)
T 2woj_A           17 THKWIFVGGKGGVGKTTSSCSIAIQMALSQ-PNKQFLLISTDPA-HNLSDAFGEKFGKDARKVTGMNNLSCMEIDPSAAL   94 (354)
T ss_dssp             SCCEEEEEESTTSSHHHHHHHHHHHHHHHC-TTSCEEEEECCSS-CCHHHHHTSCCCSSCEECTTCSSEEEEECCHHHHH
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhc-CCCeEEEEECCCC-CCHHHHhCCCCCCCceeecCCCceEEEecCHHHHH
Confidence            589999999999999999999999999  8 9999999999996 79999999865321      111100  00000  


Q ss_pred             -c------------------CCceeeccccccCCCCCCccCCchHHHHHHHHHHhccC------CCccEEEEcCCC-CC-
Q 022525           99 -N------------------YGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDW------GNLDILVIDMPP-GT-  151 (295)
Q Consensus        99 -~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~------~~yD~iiiD~~~-~~-  151 (295)
                       .                  .++..++.+... .......++......+..+++.+++      ..||+||||||| |. 
T Consensus        95 ~~~~~~~~~~~~~~~~~~~g~~l~~l~~~~~~-~el~~~~pg~~e~~~l~~l~~~l~~~~~~~~~~yD~IIiDtpPtG~t  173 (354)
T 2woj_A           95 KDMNDMAVSRANNNGSDGQGDDLGSLLQGGAL-ADLTGSIPGIDEALSFMEVMKHIKRQEQGEGETFDTVIFDTAPTGHT  173 (354)
T ss_dssp             HHHHTC--------------------CCSSHH-HHHHTTSTTHHHHHHHHHHHHHHHHHHHTSCCSCSEEEEECCCHHHH
T ss_pred             HHHHHHHHhhcccccccchhhhhhhccchhHH-HHHhcCCCChHHHHHHHHHHHHHhcccccccCCCCEEEECCCCchHH
Confidence             0                  012222110000 0000001222223556667766652      179999999999 43 


Q ss_pred             --------------------Cccchhh---------------------------hhhc--cCceEEEeeCCCcchHHHHH
Q 022525          152 --------------------GDAQLTT---------------------------TQTL--QLSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       152 --------------------~~~~~~~---------------------------~~l~--~ad~viiv~~~~~~s~~~~~  182 (295)
                                          .......                           ..+.  .+|.+++|+.|+..++.++.
T Consensus       174 LrlL~~p~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~d~~~~~~vlV~~pe~~si~ea~  253 (354)
T 2woj_A          174 LRFLQLPNTLSKLLEKFGEITNKLGPMLNSFMGAGNVDISGKLNELKANVETIRQQFTDPDLTTFVCVCISEFLSLYETE  253 (354)
T ss_dssp             HHHHTHHHHHHHHHHCC---------------------CHHHHHHHHHHHHHHHHHHTCTTTEEEEEEEESSHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHhcCCCCcEEEEEeCCCcchHHHHH
Confidence                                0000000                           0011  57899999999999999999


Q ss_pred             HHHHHHhcCCCCeeeEEecccc
Q 022525          183 KGITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~  204 (295)
                      +.++.+++.+.+..++|+|++.
T Consensus       254 r~~~~L~~~g~~~~gvVvN~v~  275 (354)
T 2woj_A          254 RLIQELISYDMDVNSIIVNQLL  275 (354)
T ss_dssp             HHHHHHHHTTCCEEEEEEEEEC
T ss_pred             HHHHHHHHcCCCCCEEEEecCC
Confidence            9999999999999999999997

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=99.88  E-value=3.6e-22  Score=165.34  Aligned_cols=195  Identities=12%  Similarity=0.067  Sum_probs=122.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccc-cccCCC-cc-ccccCccc-ccccCCceeecc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMM-MKIDQK-PE-VTKDMKMV-PIENYGVKCMSM  107 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~-~g~~~~-~~-~~~~~~~~-~~~~~~~~~~~~  107 (295)
                      |+|+|+|.|||+||||+|+|||.+|++ +|+||+++|  +|....... .+.... .. +....... +........+..
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~-~G~rVll~d--p~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~   78 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKA-AGYRTAGYK--PVASGSEKTPEGLRNSDALALQRNSSLQLDYATVNPYTFAE   78 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHH-TTCCEEEEC--SEEESCBCCTTSCBCHHHHHHHHTCSSCCCHHHHCSEEESS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEc--ceecCCccCCCCcChHHHHHHHHHhCCCCChhhcccEEeCC
Confidence            789999999999999999999999999 999999974  554221100 000000 00 00000000 000000001100


Q ss_pred             ccccCCCCCC---ccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc---hhhhhhc-c-CceEEEeeCCCcchHH
Q 022525          108 GFLVPSSSPV---VWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ---LTTTQTL-Q-LSGALIVSTPQDVALI  179 (295)
Q Consensus       108 ~~~~~~~~~~---~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~---~~~~~l~-~-ad~viiv~~~~~~s~~  179 (295)
                          +.....   ..........+.+.++.++ +.||||||||||+++...   .....+. . .+.+++|+.+...++.
T Consensus        79 ----~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viID~p~~l~~p~~~~~~~~~l~~~~~~~vi~v~~~~~~~~~  153 (224)
T 1byi_A           79 ----PTSPHIISAQEGRPIESLVMSAGLRALE-QQADWVLVEGAGGWFTPLSDTFTFADWVTQEQLPVILVVGVKLGCIN  153 (224)
T ss_dssp             ----CSCHHHHHHHHTCCCCHHHHHHHHHHHH-TTCSEEEEECSSSTTCEEETTEEHHHHHHHHTCCEEEEEECSTTHHH
T ss_pred             ----CCCHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCEEEEEcCCccccCCCcchhHHHHHHHhCCCEEEEecCCCCcHH
Confidence                000000   0000123567888888888 899999999999987422   1111111 1 1248888888888999


Q ss_pred             HHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcc
Q 022525          180 DARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMD  242 (295)
Q Consensus       180 ~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~  242 (295)
                      .+...++.+++.+.++.|+|+|+++...        .......+.+.+.++.++++.||+++.
T Consensus       154 ~~~~~i~~l~~~~~~i~gvvlN~~~~~~--------~~~~~~~~~l~~~~~~~vl~~Ip~~~~  208 (224)
T 1byi_A          154 HAMLTAQVIQHAGLTLAGWVANDVTPPG--------KRHAEYMTTLTRMIPAPLLGEIPWLAE  208 (224)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEECCSSCC--------TTHHHHHHHHHHHSSSCEEEEECCCTT
T ss_pred             HHHHHHHHHHHCCCcEEEEEEeCCCCch--------hhHHHHHHHHHHHcCCCEEEECCCCcC
Confidence            9999999998888999999999997421        111244667777889999999999884

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=99.87  E-value=1.1e-22  Score=177.43  Aligned_cols=171  Identities=20%  Similarity=0.182  Sum_probs=105.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC--------cccccc---c
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM--------KMVPIE---N   99 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~--------~~~~~~---~   99 (295)
                      +++|.|+|+||||||||+|+|||..||+ .|+||++||+|++. +++.+||...........        ...+..   .
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~-~g~~vllid~D~~~-~l~~~l~~~~~~~~~~v~~~~~L~~~~id~~~~~~~   92 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAK-VRRSVLLLSTDPAH-NLSDAFSQKFGKEARLVEGFDNLYAMEIDPNGSMQD   92 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTT-SSSCEEEEECCSSC-HHHHHHTSCCCSSCEECTTCSSEEEEECCC------
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHh-CCCcEEEEECCCCC-ChhHHhccccCCCceeecCCCCceeeecCHHHHHHH
Confidence            4677799999999999999999999999 99999999999875 777788764322111110        000000   0


Q ss_pred             CCceeecc-----ccccCCCCCC--ccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc-chh--------------
Q 022525          100 YGVKCMSM-----GFLVPSSSPV--VWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA-QLT--------------  157 (295)
Q Consensus       100 ~~~~~~~~-----~~~~~~~~~~--~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~-~~~--------------  157 (295)
                      ........     ..+ ......  ..++......+..+.+.+.+..||+|||||||..... .+.              
T Consensus        93 ~~~~~~~~~~~~~~~l-~~~~~~~~~~Pg~~e~~~~~~~~~~~~~~~yD~VIiDtpPtg~tLrlL~lp~~l~~~l~~~~~  171 (334)
T 3iqw_A           93 LLAGQTGDGDAGMGGV-GVMQDLAYAIPGIDEAMSFAEVLKQVNSLSYETIVFDTAPTGHTLRFLQFPTVLEKALAKVSQ  171 (334)
T ss_dssp             ---------------------------CCHHHHHHHHHHHHHHHTSSCSEEEEECCCHHHHHHHHTHHHHC---------
T ss_pred             HHHHhhcccccccccc-hhhHHhhcCCCCHHHHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            00000000     000 000000  0112212222333333333478999999999921100 000              


Q ss_pred             ------------------------------------------hhhhc--cCceEEEeeCCCcchHHHHHHHHHHHhcCCC
Q 022525          158 ------------------------------------------TTQTL--QLSGALIVSTPQDVALIDARKGITMFSKVQV  193 (295)
Q Consensus       158 ------------------------------------------~~~l~--~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~  193 (295)
                                                                ...+.  ..+.+++|+.|+..++.++.+.++.+++.++
T Consensus       172 ~~~~~~~~~~~~~~~~g~~p~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~~~~ea~r~~~~L~~~gi  251 (334)
T 3iqw_A          172 LSGQYGSLLNGILGGSGTLPNGQTLSDVMEKLDSLRVTISEVNAQFKDERLTTFVCVCIPEFLSLYETERMIQELANYGI  251 (334)
T ss_dssp             --------------------------CCHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHHHHHHhhCCCCeeEEEEECCCccHHHHHHHHHHHHHHCCC
Confidence                                                      00011  1357999999999999999999999999999


Q ss_pred             CeeeEEecccc
Q 022525          194 PILGLVENMSC  204 (295)
Q Consensus       194 ~~~~~ViN~~~  204 (295)
                      ++.|+|+|++.
T Consensus       252 ~v~gvVvN~~~  262 (334)
T 3iqw_A          252 DTHCIVVNQLL  262 (334)
T ss_dssp             CEEEEEEEEEC
T ss_pred             CccEEEECCCc
Confidence            99999999986

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=99.85  E-value=4e-22  Score=174.74  Aligned_cols=208  Identities=15%  Similarity=0.151  Sum_probs=111.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH--HhCCCeEEEEEeCCCCCCcccccccCCCccccccC--------cccccc--
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA--SKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM--------KMVPIE--   98 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la--~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~--------~~~~~~--   98 (295)
                      .+.|+|+|+||||||||+|+|||..+|  + .|++|++||+|++ ++++.+||.+.........        .+.+..  
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~~la~~~-~g~~vllid~D~~-~~l~~~~~~~~~~~~~~v~~~~~L~~~~id~~~~~   94 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAVQLALAQ-PNEQFLLISTDPA-HNLSDAFCQKFGKDARKVEGLPNLSCMEIDPEAAM   94 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHHHHC-TTSCEEEEECCSS-CHHHHHHTSCCCSSCEEETTEEEEEEEECCC----
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhc-CCCeEEEEECCCC-CChHHHhccccCCCceeccCCCCceEEeeCHHHHH
Confidence            456777788999999999999999999  8 9999999999976 4788888865322211110        000000  


Q ss_pred             -cCCceee--------ccccccCCCCCCccCCchHHHHHHHHHHhccC------------CCccEEEEcCCCCCCcc---
Q 022525           99 -NYGVKCM--------SMGFLVPSSSPVVWRGPMVMSALRKMSREVDW------------GNLDILVIDMPPGTGDA---  154 (295)
Q Consensus        99 -~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~------------~~yD~iiiD~~~~~~~~---  154 (295)
                       .....+.        +...+.. ......++......+.++++.+.+            ..||+|||||||.....   
T Consensus        95 ~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~Pg~~e~~~~~~~~~~l~~~~~~~~~~~~~~~~yD~VIiDtpPtg~tLrlL  173 (348)
T 3io3_A           95 SDLQQQASQYNNDPNDPLKSMMS-DMTGSIPGIDEALSFMEVLKHIKNQKVLEGEDNSNAISYKTIIFDTAPTGHTLRFL  173 (348)
T ss_dssp             --------------------------------------------------------------CCEEEEECSSHHHHHHHT
T ss_pred             HHHHHHHHhhcccccccHhHHhH-HhhcCCCCHHHHHHHHHHHHHHHhccccccccccccCCCCEEEEcCCCchHHHHHH
Confidence             0000000        0000000 000000111111233444444441            27999999999932100   


Q ss_pred             -------c-hh--------------------------------------hhhhc--cCceEEEeeCCCcchHHHHHHHHH
Q 022525          155 -------Q-LT--------------------------------------TTQTL--QLSGALIVSTPQDVALIDARKGIT  186 (295)
Q Consensus       155 -------~-~~--------------------------------------~~~l~--~ad~viiv~~~~~~s~~~~~~~~~  186 (295)
                             . +.                                      ...+.  ..+.+++|+.|+..++.++.+.++
T Consensus       174 ~lP~~~~~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~~~~ea~r~~~  253 (348)
T 3io3_A          174 QLPSTLEKLLSKFKDLSGKLGPMLSMMGGGQQQDIFEKLNEVQKNVSEVNEQFTNPELTTFICVCISEFLSLYETERMIQ  253 (348)
T ss_dssp             C---------------------------------------------CHHHHHHTCTTTEEEEEEEESSHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHhhhHHHHhcccCchHHHHHHHHHHHHHHHHHHHHHhCcCceEEEEEecCCccHHHHHHHHHH
Confidence                   0 00                                      00000  136799999999999999999999


Q ss_pred             HHhcCCCCeeeEEeccccCCC-C--CCCCC--ccccCCchhhHHHHHhCCcEEEeecCCc
Q 022525          187 MFSKVQVPILGLVENMSCFIC-P--HCSEP--SFIFGKGGTHRTAAEMGLKVIGEIPIEM  241 (295)
Q Consensus       187 ~l~~~~~~~~~~ViN~~~~~~-~--~~~~~--~~~~~~~~~~~~~~~~g~~~~~~Ip~~~  241 (295)
                      .+++.++++.|+|+|++.... .  .+...  ....+...++++.+.++...+..||.-+
T Consensus       254 ~L~~~gi~v~gvVvN~~~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~~~~~~~~~~pl~~  313 (348)
T 3io3_A          254 ELMSYNMDVNSIVVNQLLFAEGDDHSCKRCESRWKMQKKYLDQMGELYEDYHLVKMPLLG  313 (348)
T ss_dssp             HHHHTTCCCCEEEEEEECCCC-----CHHHHHHHHHHHHHHHHHHHHTTTSEEEEEECCS
T ss_pred             HHHHCCCCccEEEEcCCccccccCccCHHHHHHHHHHHHHHHHHHHHccCCCEEEecCCC
Confidence            999999999999999998532 0  00000  0000122355666666544455666443

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.78  E-value=1.4e-19  Score=170.28  Aligned_cols=210  Identities=18%  Similarity=0.177  Sum_probs=118.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCc-cccccCcccccccCCceeeccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKP-EVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~-~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      +.++|.|+++|||+||||+|+|||..+++ +|++|++||+|+++ ++...++..... .................+++..
T Consensus       325 ~~~~~~~~~~~~g~Gktt~a~~lA~~l~~-~g~~vllvD~Dp~~-~l~~~l~~~~~~l~~~~~~~~~~~~~~~~~v~~~~  402 (589)
T 1ihu_A          325 NEHGLIMLMGKGGVGKTTMAAAIAVRLAD-MGFDVHLTTSDPAA-HLSMTLNGSLNNLQVSRIDPHEETERYRQHVLETK  402 (589)
T ss_dssp             TSCEEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEESCCC------------CCEEEEECCHHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEecCCCCChhhHHHHHHHHHHH-CCCcEEEEeCCCcc-cHhHHhcccCCCceeeecchHHHHHHHHHHHHHhh
Confidence            46899999999999999999999999999 99999999999994 677777663211 1111110000000000011100


Q ss_pred             --ccc----CC-CCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCC--------------------cc--chh-h
Q 022525          109 --FLV----PS-SSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTG--------------------DA--QLT-T  158 (295)
Q Consensus       109 --~~~----~~-~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~--------------------~~--~~~-~  158 (295)
                        .+.    +. ..............+..+.+.+++..||+|||||||+..                    +.  ... .
T Consensus       403 ~~~l~~~~~~~~~~~~~~p~~~e~~~~~~l~~~~~~~~~D~vviD~~p~~~tl~ll~~p~~~~~~~~~~~~~~~~~~~~~  482 (589)
T 1ihu_A          403 GKELDEAGKRLLEEDLRSPCTEEIAVFQAFSRVIREAGKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGHFTTPM  482 (589)
T ss_dssp             HTTCCHHHHHHHHHHTTSHHHHHHHHHHHHTTTGGGGGTSEEEESCCCCHHHHHHHHHC------------------CCH
T ss_pred             hccCChhhHHHHHHHhcCCChHHHHHHHHHHHHHhccCCCEEEEcCCCCccHHHHHHhHHHHHHHHHHhcccchHHHHHH
Confidence              000    00 000000000011233444444432579999999999832                    00  000 1


Q ss_pred             hhhc--cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCC---ccccCCchhhHHHHHhCCcE
Q 022525          159 TQTL--QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEP---SFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       159 ~~l~--~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~---~~~~~~~~~~~~~~~~g~~~  233 (295)
                      ..+.  .+|.+++|+.|+..++.++.+.++.+++.+++..++|+|++..........   ........++++.+.++.++
T Consensus       483 ~~l~d~~~~~vvlV~~p~~~~~~~a~~~~~~l~~~g~~~~gvVvN~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~v  562 (589)
T 1ihu_A          483 MLLQDPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINNSLSIADTRSPLLRMRAQQELPQIESVKRQHASRV  562 (589)
T ss_dssp             HHHHCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTCCCCEEEEEEESTTSCCCCHHHHHHHHHHHHHHHHHHTTTCSSE
T ss_pred             HHhcCCCCCEEEEEeCCCccHHHHHHHHHHHHHHCCCCCCEEEEeCCcCCCCCcCHHHHHHHHHHHHHHHHHHHhcCCcE
Confidence            1111  468999999999999999999999999999999999999998532110000   00011123556677777766


Q ss_pred             EEeecCCcc
Q 022525          234 IGEIPIEMD  242 (295)
Q Consensus       234 ~~~Ip~~~~  242 (295)
                       +.||+.+.
T Consensus       563 -~~iP~~~~  570 (589)
T 1ihu_A          563 -ALVPVLAS  570 (589)
T ss_dssp             -EEEECCSS
T ss_pred             -EEccCCCC
Confidence             78886544

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=99.77  E-value=1.5e-18  Score=153.00  Aligned_cols=168  Identities=18%  Similarity=0.191  Sum_probs=103.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccc---------cC--
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIE---------NY--  100 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~---------~~--  100 (295)
                      ..|.++++|||+||||+|++||..+|+ .|+||++||+ ++ ++++.+||.................         ..  
T Consensus         2 ~~i~~~~gkGG~GKTt~a~~la~~la~-~g~~vllvd~-~~-~~l~~~~~~~~~~~~~~v~~~L~~~eid~~~~~~~~~~   78 (374)
T 3igf_A            2 ALILTFLGKSGVARTKIAIAAAKLLAS-QGKRVLLAGL-AE-PVLPLLLEQTLTPDPQQIAPNLEVVQFQSSVLLERNWE   78 (374)
T ss_dssp             CEEEEEECSBHHHHHHHHHHHHHHHHH-TTCCEEEEEC-SC-SHHHHHHTSCCCSSCEEEETTEEEEECCHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHH-CCCCeEEEeC-CC-CChHHhhCCCCCCCcccccccccccccCHHHHHHHHHH
Confidence            456788999999999999999999999 9999999999 65 5888888876432221110000000         00  


Q ss_pred             -----CceeeccccccCCC--CCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCcc-------------------
Q 022525          101 -----GVKCMSMGFLVPSS--SPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDA-------------------  154 (295)
Q Consensus       101 -----~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~-------------------  154 (295)
                           ....++...+....  .....++......+..+.+.+.+..||+|||||||....-                   
T Consensus        79 ~~~~~~~~~l~~~~~~~~~~~el~~~Pg~~E~~~l~~~~~~~~~~~yD~VIvDtpPtg~tLrlL~lP~~l~~~l~~l~~~  158 (374)
T 3igf_A           79 EVKKLEAQYLRTPIIKEVYGQELVVLPGMDSALALNAIREYDASGKYDTIVYDGTGDAFTLRMLGLPESLSWYVRRFRQL  158 (374)
T ss_dssp             HHHHHHHHHCSSCSSSSSCGGGCCCCTTHHHHHHHHHHHHHHHTTCCSEEEEECCCSHHHHHHHTHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHhhcccccccccchhhhccCCCHHHHHHHHHHHHHHhccCCCEEEEeCCCChHHhhhhhhhHHHHHHHHHHHHH
Confidence                 00000000000000  0001122222223334443333378999999999932100                   


Q ss_pred             --c------h------------------------------------hhhhhcc--CceEEEeeCCCcchHHHHHHHHHHH
Q 022525          155 --Q------L------------------------------------TTTQTLQ--LSGALIVSTPQDVALIDARKGITMF  188 (295)
Q Consensus       155 --~------~------------------------------------~~~~l~~--ad~viiv~~~~~~s~~~~~~~~~~l  188 (295)
                        .      .                                    ....+..  ...+++|+.|+..++.++.+.++.+
T Consensus       159 ~~~~~~g~~~~~~~~~~p~~~~~~~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~sl~ea~r~~~~L  238 (374)
T 3igf_A          159 FVNSDLGKTIAESPLIQPLISSFFNVNWTADNFAQPTNQVNNFLDKGKEALADPKRVAAFLVTTADPLEVVSVRYLWGSA  238 (374)
T ss_dssp             C-----------------------------------CHHHHHHHHHHHHHHHCTTTEEEEEEECSCHHHHHHHHHHHHHH
T ss_pred             HhhhccccccccchhhhhhhhhhccCCCchHHHHHHHHHHHHHHHHHHHHHhccCCeEEEEEECCCccHHHHHHHHHHHH
Confidence              0      0                                    0001111  1468999999999999999999999


Q ss_pred             hcCCCCeeeEEecc
Q 022525          189 SKVQVPILGLVENM  202 (295)
Q Consensus       189 ~~~~~~~~~~ViN~  202 (295)
                      .+.++++.|+|+|+
T Consensus       239 ~~~gi~v~gvVvN~  252 (374)
T 3igf_A          239 QQIGLTIGGVIQVS  252 (374)
T ss_dssp             HHHTCCEEEEEECC
T ss_pred             HHcCCCccEEEEcC
Confidence            99999999999999

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.76  E-value=5e-19  Score=166.48  Aligned_cols=171  Identities=15%  Similarity=0.127  Sum_probs=110.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccc---cc----------
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVP---IE----------   98 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~---~~----------   98 (295)
                      +.|.|+|+||||||||+|+|||..+|+ .|+||++||+|++ ++++..||.+.............   ..          
T Consensus         8 ~~i~~~sgkGGvGKTT~a~~lA~~lA~-~G~rVLlvd~D~~-~~l~~~l~~~~~~~~~~v~~~~~l~~~~~d~~~~~~~~   85 (589)
T 1ihu_A            8 PPYLFFTGKGGVGKTSISCATAIRLAE-QGKRVLLVSTDPA-SNVGQVFSQTIGNTIQAIASVPGLSALEIDPQAAAQQY   85 (589)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTT-CCHHHHTTSCCCSSCEECTTSTTEEEEECCHHHHHHHH
T ss_pred             CEEEEEeCCCcCHHHHHHHHHHHHHHH-CCCcEEEEECCCC-cCHHHHhCCcccCCCceeccchhhhhccCCHHHHHHHH
Confidence            456688999999999999999999999 9999999999996 79999998865433221110000   00          


Q ss_pred             -----cCCceeeccccccCCCCCC---ccCCchHHHHHHHHHH--hccCCCccEEEEcCCCCCCccc-h-----------
Q 022525           99 -----NYGVKCMSMGFLVPSSSPV---VWRGPMVMSALRKMSR--EVDWGNLDILVIDMPPGTGDAQ-L-----------  156 (295)
Q Consensus        99 -----~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~l~~~~yD~iiiD~~~~~~~~~-~-----------  156 (295)
                           .....+++..........+   ...+....+.+..+++  .++ ..||+|||||||...... +           
T Consensus        86 ~~~~~~~~~~~lp~~~~~~~~~~l~~~~~~e~~~~~~~~~ll~~~~l~-~~yD~VIiDt~P~~~~lrll~lP~~~~~~l~  164 (589)
T 1ihu_A           86 RARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDASLL-TRFDHIIFDTAPTGHTIRLLQLPGAWSSFID  164 (589)
T ss_dssp             HHHHHGGGTTTSCHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHCTTHH-HHCSEEEESSCCCHHHHHHHHCGGGGTCCC-
T ss_pred             HHHHHHHHHHhcchhhHHHHHHHhcccchHHHHHHHHHHHHHhchhhc-ccCCEEEECCCCchhHHHHHHhHHHHHHHHH
Confidence                 0000011100000000000   0011123456677777  555 789999999998632100 0           


Q ss_pred             ------------------------hhhhhc--cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          157 ------------------------TTTQTL--QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       157 ------------------------~~~~l~--~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                                              ....+.  ..+.+++|+.++..++..+.+.++.+++.+.+..++|+|++..
T Consensus       165 ~~~~~~~~l~~~~~l~~~~~~~~~~~~~l~d~~~t~vvlV~~~~~~~~~~~~~~~~~L~~~g~~~~gvVlN~v~~  239 (589)
T 1ihu_A          165 SNPEGASCLGPMAGLEKQREQYAYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVLP  239 (589)
T ss_dssp             -----CCCCGGGGGCCSCHHHHHHHHHHHHCTTTEEEEEEEESCHHHHHHHHHHHHHHHHHTCCCEEEEEEEECC
T ss_pred             HhhccccccchhhhhhHHHHHHHHHHHHhcCCCCcEEEEEeCCCccHHHHHHHHHHHHHhCCCCCCEEEEcCCcC
Confidence                                    000010  1236999999999999999999999999999999999999974

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=99.70  E-value=2.5e-16  Score=141.77  Aligned_cols=166  Identities=20%  Similarity=0.216  Sum_probs=105.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      .+++|+|+ ++||+||||++.+||.+|++ + |++|++||+|++.+.....+..             .....++++++.+
T Consensus        99 ~~~vI~iv-G~~GvGKTT~a~~LA~~l~~-~~G~kVllvd~D~~r~~a~~ql~~-------------~~~~~~l~v~~~~  163 (433)
T 2xxa_A           99 PPAVVLMA-GLQGAGKTTSVGKLGKFLRE-KHKKKVLVVSADVYRPAAIKQLET-------------LAEQVGVDFFPSD  163 (433)
T ss_dssp             SSEEEEEE-CSTTSSHHHHHHHHHHHHHH-TSCCCEEEEECCCSSTTHHHHHHH-------------HHHHHTCEECCCC
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHHH-hcCCeEEEEecCCCCccHHHHHHh-------------hcccCCeeEEeCC
Confidence            46899998 58999999999999999999 8 9999999999998654321110             0112344544432


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhh------hhccCceEEEeeCCCcchHHHHH
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTT------QTLQLSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~------~l~~ad~viiv~~~~~~s~~~~~  182 (295)
                      .      .     ......+...+..+++..||+|||||||.+........      .+...+.+++|+.+...  .++.
T Consensus       164 ~------~-----~dp~~i~~~~l~~~~~~~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g--~~~~  230 (433)
T 2xxa_A          164 V------G-----QKPVDIVNAALKEAKLKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTG--QDAA  230 (433)
T ss_dssp             S------S-----SCHHHHHHHHHHHHHHTTCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBC--TTHH
T ss_pred             C------C-----CCHHHHHHHHHHHHHhCCCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchh--HHHH
Confidence            1      0     01123345566665435899999999987653222222      13357788887776532  3344


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ...+.+.. ..++.|+|+|+++.....          .....+...++.++.
T Consensus       231 ~~~~~f~~-~l~i~gvVlnK~D~~~~~----------g~~l~i~~~~~~Pi~  271 (433)
T 2xxa_A          231 NTAKAFNE-ALPLTGVVLTKVDGDARG----------GAALSIRHITGKPIK  271 (433)
T ss_dssp             HHHHHHHH-HSCCCCEEEECTTSSSCC----------THHHHHHHHHCCCEE
T ss_pred             HHHHHHhc-cCCCeEEEEecCCCCccH----------HHHHHHHHHHCCCeE
Confidence            44444432 456778999999843111          235567777776643

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=99.63  E-value=1.2e-15  Score=126.20  Aligned_cols=190  Identities=12%  Similarity=0.091  Sum_probs=119.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccc--ccCc----c-cccccCCc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVT--KDMK----M-VPIENYGV  102 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~--~~~~----~-~~~~~~~~  102 (295)
                      .|+.|.|++...|+|||+++++|+..|++ +|++|..+-  |.+....   ...  .++.  |...    . .+....+.
T Consensus         3 ~mk~i~Itgt~t~vGKT~vt~~L~~~l~~-~G~~V~~~K--Pv~~g~~---~~~--~~~~~~D~~~~~~~~~~~~~~~~~   74 (228)
T 3of5_A            3 AMKKFFIIGTDTEVGKTYISTKLIEVCEH-QNIKSLCLK--PVASGQS---QFS--ELCEDVESILNAYKHKFTAAEINL   74 (228)
T ss_dssp             TCEEEEEEESSSSSCHHHHHHHHHHHHHH-TTCCEEEEC--SEEESBC---SSS--SSBHHHHHHHHHTTTSSCHHHHCS
T ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHHHHHH-CCCeeEEec--ceeecCc---cCC--CCCChHHHHHHhcCCCCChhhEEE
Confidence            47999999999999999999999999999 999999863  3221110   000  0110  1000    0 01111111


Q ss_pred             eeeccccccCCCCC-CccCCchHHHHHHHHHHh-ccCCCccEEEEcCCCCCCccch---hhhhh--ccCceEEEeeCCCc
Q 022525          103 KCMSMGFLVPSSSP-VVWRGPMVMSALRKMSRE-VDWGNLDILVIDMPPGTGDAQL---TTTQT--LQLSGALIVSTPQD  175 (295)
Q Consensus       103 ~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~-l~~~~yD~iiiD~~~~~~~~~~---~~~~l--~~ad~viiv~~~~~  175 (295)
                      ..+.. .. +++.. .........+.+...++. +. ..||+||||+++|+.....   ....+  ....-+|+|+.+..
T Consensus        75 ~~~~~-p~-sp~~aa~~~~~~i~~~~i~~~~~~~l~-~~~D~vlIEgaggl~~p~~~~~~~adla~~l~~pviLV~~~~~  151 (228)
T 3of5_A           75 ISFNQ-AV-APHIIAAKTKVDISIENLKQFIEDKYN-QDLDILFIEGAGGLLTPYSDHTTQLDLIKALQIPVLLVSAIKV  151 (228)
T ss_dssp             EEESS-SS-CHHHHHHHTTCCCCHHHHHHHHHGGGG-SSCSEEEEEEEEETTCBSSSSCBHHHHHHHHTCCEEEEEECST
T ss_pred             EEECC-CC-CHHHHHHHcCCCCCHHHHHHHHHHHHH-ccCCEEEEECCCccccccccchhHHHHHHHcCCCEEEEEcCCc
Confidence            11110 00 00000 000111235678888888 87 8999999999987753211   11111  01234888999999


Q ss_pred             chHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeec
Q 022525          176 VALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIP  238 (295)
Q Consensus       176 ~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip  238 (295)
                      .++..+...++.++..+.++.|+|+|+++....        ......+.+.+.+|.+++++||
T Consensus       152 ~~i~~~~~~~~~l~~~~~~i~GvIlN~~~~~~~--------~~~~~~~~l~~~~g~pvLG~iP  206 (228)
T 3of5_A          152 GCINHTLLTINELNRHNIKLAGWIANCNDSNIK--------YIDEQINTIEELSGYKCSAKIS  206 (228)
T ss_dssp             THHHHHHHHHHHHHHTTCCEEEEEEEECCTTCS--------CHHHHHHHHHHHHSCCCSEEEE
T ss_pred             chHHHHHHHHHHHHhCCCcEEEEEEECcCCcch--------hhHHHHHHHHHhhCCCEEEECC
Confidence            999999999999999999999999999873211        1123466777778999999999

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=99.63  E-value=2.3e-15  Score=129.28  Aligned_cols=165  Identities=21%  Similarity=0.226  Sum_probs=106.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +++|+++ +++|+||||++.+||..++. .|++|+++|+|++.+.....+..     +        ....++++++..  
T Consensus        98 ~~vi~i~-G~~G~GKTT~~~~la~~~~~-~g~~v~l~~~D~~r~~a~~ql~~-----~--------~~~~~v~v~~~~--  160 (297)
T 1j8m_F           98 PYVIMLV-GVQGTGKTTTAGKLAYFYKK-KGFKVGLVGADVYRPAALEQLQQ-----L--------GQQIGVPVYGEP--  160 (297)
T ss_dssp             SEEEEEE-CSSCSSTTHHHHHHHHHHHH-TTCCEEEEECCCSSSHHHHHHHH-----H--------HHHHTCCEECCT--
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCeEEEEecCCCCHHHHHHHHH-----H--------hccCCeEEEecC--
Confidence            6888887 68999999999999999999 99999999999998654322210     0        111233443321  


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCC--ccchhh------hhhccCceEEEeeCCCcchHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTG--DAQLTT------TQTLQLSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~--~~~~~~------~~l~~ad~viiv~~~~~~s~~~~~  182 (295)
                          .     .......+...++.+++..||+|||||||...  ......      .....+|.+++|+.+...  ..+.
T Consensus       161 ----~-----~~~p~~~~~~~l~~~~~~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g--~~~~  229 (297)
T 1j8m_F          161 ----G-----EKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG--QKAY  229 (297)
T ss_dssp             ----T-----CCCHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGHH
T ss_pred             ----C-----CCCHHHHHHHHHHHHHhCCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch--HHHH
Confidence                0     01112334556666643789999999998776  311111      234478999999877642  3444


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ...+.+.. ..++.++|+|+++....          ......+...++.++.
T Consensus       230 ~~~~~~~~-~~~i~gvVlnk~D~~~~----------~g~~~~~~~~~~~pi~  270 (297)
T 1j8m_F          230 DLASKFNQ-ASKIGTIIITKMDGTAK----------GGGALSAVAATGATIK  270 (297)
T ss_dssp             HHHHHHHH-TCTTEEEEEECGGGCTT----------HHHHHHHHHTTTCCEE
T ss_pred             HHHHHHHh-hCCCCEEEEeCCCCCcc----------hHHHHHHHHHHCcCEE
Confidence            44455543 46778999999984311          1235567777787765

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=99.60  E-value=1.4e-14  Score=125.53  Aligned_cols=170  Identities=15%  Similarity=0.143  Sum_probs=102.4

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+++|+|+|. +|+||||++.+||..++. .|++|+++|+|++.+.....+.     .+.+.     ....++.++|.+.
T Consensus       104 ~~~vI~ivG~-~G~GKTT~~~~LA~~l~~-~g~kVllid~D~~r~~a~~ql~-----~~~~~-----~~~~~l~vip~~~  171 (320)
T 1zu4_A          104 RLNIFMLVGV-NGTGKTTSLAKMANYYAE-LGYKVLIAAADTFRAGATQQLE-----EWIKT-----RLNNKVDLVKANK  171 (320)
T ss_dssp             SCEEEEEESS-TTSSHHHHHHHHHHHHHH-TTCCEEEEECCCSCHHHHHHHH-----HHHTT-----TSCTTEEEECCSS
T ss_pred             CCeEEEEECC-CCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCcchhHHHHHH-----HHHhc-----cccCCceEEeCCC
Confidence            3789999987 999999999999999999 9999999999997643211000     00000     0023445543221


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhh------------ccCceEEEeeCCCcch
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQT------------LQLSGALIVSTPQDVA  177 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l------------~~ad~viiv~~~~~~s  177 (295)
                           ...   .. .......+...++ ..||+|||||||.+......+..+            ..+|.+++|+.+.. .
T Consensus       172 -----~~~---~p-~~~~~~~l~~~~~-~~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~-~  240 (320)
T 1zu4_A          172 -----LNA---DP-ASVVFDAIKKAKE-QNYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATT-G  240 (320)
T ss_dssp             -----TTC---CH-HHHHHHHHHHHHH-TTCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGG-T
T ss_pred             -----CCC---CH-HHHHHHHHHHHHh-cCCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCC-c
Confidence                 000   00 1112333333445 899999999999876321111111            13678888877663 3


Q ss_pred             HHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          178 LIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      . .+....+.+. ...++.|+|+|+++.....          ..+..+...++.|+.
T Consensus       241 ~-~~l~~~~~~~-~~~~i~GvVltk~d~~~~~----------g~~~~~~~~~~~Pi~  285 (320)
T 1zu4_A          241 Q-NGVIQAEEFS-KVADVSGIILTKMDSTSKG----------GIGLAIKELLNIPIK  285 (320)
T ss_dssp             H-HHHHHHHHHT-TTSCCCEEEEECGGGCSCT----------THHHHHHHHHCCCEE
T ss_pred             H-HHHHHHHHHh-hcCCCcEEEEeCCCCCCch----------hHHHHHHHHHCcCEE
Confidence            2 3333333333 2367889999999853211          346677778888874

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=99.58  E-value=1.8e-14  Score=123.78  Aligned_cols=166  Identities=19%  Similarity=0.167  Sum_probs=104.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+++|+++ +++|+||||++.+||..++. .|.+|+++|+|++.+.....++.             .....++++++.+.
T Consensus        97 ~~~~i~i~-g~~G~GKTT~~~~la~~~~~-~~~~v~l~~~d~~~~~~~~ql~~-------------~~~~~~l~~~~~~~  161 (295)
T 1ls1_A           97 DRNLWFLV-GLQGSGKTTTAAKLALYYKG-KGRRPLLVAADTQRPAAREQLRL-------------LGEKVGVPVLEVMD  161 (295)
T ss_dssp             SSEEEEEE-CCTTTTHHHHHHHHHHHHHH-TTCCEEEEECCSSCHHHHHHHHH-------------HHHHHTCCEEECCT
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEecCCcccHhHHHHHHH-------------hcccCCeEEEEcCC
Confidence            57899998 78999999999999999999 99999999999987544321210             01122344443321


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhh------ccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQT------LQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l------~~ad~viiv~~~~~~s~~~~~~  183 (295)
                            .   ..  ....++..+..+....||+|||||||..+........+      ...|.+++|+.+.. . .++..
T Consensus       162 ------~---~~--p~~l~~~~l~~~~~~~~D~viiDtpp~~~~d~~~~~~l~~~~~~~~~~~~~lv~~~~~-~-~~~~~  228 (295)
T 1ls1_A          162 ------G---ES--PESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMT-G-QEALS  228 (295)
T ss_dssp             ------T---CC--HHHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGG-T-HHHHH
T ss_pred             ------C---CC--HHHHHHHHHHHHHhCCCCEEEEeCCCCccccHHHHHHHHHHhhhcCCCEEEEEEeCCC-c-HHHHH
Confidence                  0   00  11222445555421689999999998776422222221      24788888877653 2 34444


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+.. ..++.|+|+|+++....          ......+....|.|+.
T Consensus       229 ~~~~~~~-~~~i~givlnk~d~~~~----------~g~~~~~~~~~~~pi~  268 (295)
T 1ls1_A          229 VARAFDE-KVGVTGLVLTKLDGDAR----------GGAALSARHVTGKPIY  268 (295)
T ss_dssp             HHHHHHH-HTCCCEEEEECGGGCSS----------CHHHHHHHHHHCCCEE
T ss_pred             HHHHHhh-cCCCCEEEEECCCCCcc----------HHHHHHHHHHHCcCEE
Confidence            4444432 35678999999985311          1346677778888776

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A*

Probab=99.56  E-value=5.8e-14  Score=117.27  Aligned_cols=191  Identities=15%  Similarity=0.114  Sum_probs=118.7

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccc----cCCceee
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIE----NYGVKCM  105 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~----~~~~~~~  105 (295)
                      .++.|.|++...|+|||++++.|+.+|++ +|++|..+-  |.+...      .+..  .|...+....    ..+...+
T Consensus        25 ~m~~i~Itgt~t~vGKT~vt~gL~~~l~~-~G~~V~~fK--Pv~~g~------~~~~--~D~~~~~~~~g~~~~~~~~~~   93 (251)
T 3fgn_A           25 HMTILVVTGTGTGVGKTVVCAALASAARQ-AGIDVAVCK--PVQTGT------ARGD--DDLAEVGRLAGVTQLAGLARY   93 (251)
T ss_dssp             SCEEEEEEESSTTSCHHHHHHHHHHHHHH-TTCCEEEEE--EEECCG------GGTC--CHHHHHHHHHCCCEEEEEEEC
T ss_pred             CCCEEEEEeCCCCCcHHHHHHHHHHHHHH-CCCeEEEEe--eeecCC------CCCC--HHHHHHHHHcCCCCCCCCeeE
Confidence            37999999999999999999999999999 999999874  211110      0000  1110000000    0011000


Q ss_pred             c--cccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc----hhhhhh--ccCceEEEeeCCCcch
Q 022525          106 S--MGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ----LTTTQT--LQLSGALIVSTPQDVA  177 (295)
Q Consensus       106 ~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~----~~~~~l--~~ad~viiv~~~~~~s  177 (295)
                      .  ..+....  ..........+.+...++.+. ..||+||||+++|+....    .....+  ....-+|+|+.+...+
T Consensus        94 ~~p~sP~~aa--~~~~~~~~~~~~i~~~~~~l~-~~~D~vlIEGagGl~~pl~~~~~~~adla~~l~~pVILV~~~~~g~  170 (251)
T 3fgn_A           94 PQPMAPAAAA--EHAGMALPARDQIVRLIADLD-RPGRLTLVEGAGGLLVELAEPGVTLRDVAVDVAAAALVVVTADLGT  170 (251)
T ss_dssp             SSSSCHHHHH--HHTTCCCCCHHHHHHHHHTTC-CTTCEEEEECSSSTTCEEETTTEEHHHHHHHTTCEEEEEECSSTTH
T ss_pred             CCCCChHHHH--HHcCCCCCCHHHHHHHHHHHH-hcCCEEEEECCCCCcCCcCcccchHHHHHHHcCCCEEEEEcCCCcc
Confidence            0  0000000  000011223567888888888 899999999999875321    111111  1245688999999889


Q ss_pred             HHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccc
Q 022525          178 LIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDI  243 (295)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~  243 (295)
                      +..+...++.++..+.++.|+|+|+++..      .. ... ....+..+++ ++++++||+++..
T Consensus       171 i~~~~lt~~~l~~~g~~i~GvIlN~v~~~------~~-~~~-~~~~~~le~~-vpvLG~iP~~~~~  227 (251)
T 3fgn_A          171 LNHTKLTLEALAAQQVSCAGLVIGSWPDP------PG-LVA-ASNRSALARI-AMVRAALPAGAAS  227 (251)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEEEECSS------CC-HHH-HHHHHHHHHH-SCEEEEEETTGGG
T ss_pred             HHHHHHHHHHHHhCCCCEEEEEEECCCCc------hh-hhh-hhHHHHHHHh-CCEEEEeeCCCCc
Confidence            99999999999889999999999998621      10 001 1123444455 9999999998753

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=99.54  E-value=4.9e-14  Score=126.06  Aligned_cols=166  Identities=19%  Similarity=0.164  Sum_probs=105.4

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+++|+++ +++|+||||++.+||..++. .|++|+++|+|++.+.....+...             ....++++++.+.
T Consensus        97 ~~~vi~i~-G~~GsGKTT~~~~LA~~l~~-~g~~Vllvd~D~~r~aa~~qL~~~-------------~~~~gv~v~~~~~  161 (425)
T 2ffh_A           97 DRNLWFLV-GLQGSGKTTTAAKLALYYKG-KGRRPLLVAADTQRPAAREQLRLL-------------GEKVGVPVLEVMD  161 (425)
T ss_dssp             SSEEEEEE-CCTTSSHHHHHHHHHHHHHT-TTCCEEEEECCSSCHHHHHHHHHH-------------HHHHTCCEEECCT
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEeeccccCchhHHHHHHh-------------cccCCccEEecCC
Confidence            46899998 67999999999999999999 999999999999986543322110             1123444444321


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhh------hhhccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTT------TQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~------~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                            .     ......+...++.++...||+|||||||.........      ......|.+++|+.+.. . .++..
T Consensus       162 ------~-----~~p~~i~~~~l~~~~~~~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~t-g-q~av~  228 (425)
T 2ffh_A          162 ------G-----ESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMT-G-QEALS  228 (425)
T ss_dssp             ------T-----CCHHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGG-T-THHHH
T ss_pred             ------C-----CCHHHHHHHHHHHHHHCCCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccc-h-HHHHH
Confidence                  0     0112233556666522789999999998775321111      12235788888877653 2 44444


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+.. ..++.|+|+|+++....          ......+....|.++.
T Consensus       229 ~a~~f~~-~l~i~GVIlTKlD~~~~----------~g~alsi~~~~g~PI~  268 (425)
T 2ffh_A          229 VARAFDE-KVGVTGLVLTKLDGDAR----------GGAALSARHVTGKPIY  268 (425)
T ss_dssp             HHHHHHH-HTCCCEEEEESGGGCSS----------CHHHHHHHHHHCCCEE
T ss_pred             HHHHHHh-cCCceEEEEeCcCCccc----------HHHHHHHHHHHCCCEE
Confidence            4444432 35678999999984311          1235567777787754

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.53  E-value=1.1e-14  Score=123.03  Aligned_cols=46  Identities=26%  Similarity=0.335  Sum_probs=41.3

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSV   76 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~   76 (295)
                      .+...++++++|||+||||++.+||..++  .|++|++||+|+|.+.+
T Consensus        11 ~~~~~i~~~~GkgGvGKTTl~~~La~~l~--~g~~v~vvd~D~~~~~~   56 (262)
T 1yrb_A           11 GMASMIVVFVGTAGSGKTTLTGEFGRYLE--DNYKVAYVNLDTGVKEL   56 (262)
T ss_dssp             TCCCEEEEEECSTTSSHHHHHHHHHHHHT--TTSCEEEEECCSSCSCC
T ss_pred             CcceEEEEEeCCCCCCHHHHHHHHHHHHH--CCCeEEEEeCCCCcccc
Confidence            34578899999999999999999999998  69999999999998665

>3qxc_A Dethiobiotin synthetase; DTBS, structural genomics, ATP BIND biology, protein structure initiative, midwest center for S genomics, MCSG; HET: ATP; 1.34A {Helicobacter pylori} PDB: 3mle_A* 3qxh_A* 3qxj_A* 3qxs_A* 3qxx_A* 3qy0_A* 2qmo_A

Probab=99.53  E-value=2.2e-14  Score=119.21  Aligned_cols=212  Identities=10%  Similarity=-0.011  Sum_probs=120.1

Q ss_pred             cccCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccc-----cccCccccccc
Q 022525           25 LKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV-----TKDMKMVPIEN   99 (295)
Q Consensus        25 ~~~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~-----~~~~~~~~~~~   99 (295)
                      .....+++.|.|++...|+|||++++.|+.+|++ +|.+|..+-  |.+......-+.+....+     .....-.+...
T Consensus        15 ~~~~~m~k~i~ItgT~t~vGKT~vs~gL~~~L~~-~G~~V~~fK--Pv~~g~~~~~~~~~D~~~~~~~~~~~~~g~~~~~   91 (242)
T 3qxc_A           15 ENLYFQGHMLFISATNTNAGKTTCARLLAQYCNA-CGVKTILLK--PIETGVNDAINHSSDAHLFLQDNRLLDRSLTLKD   91 (242)
T ss_dssp             ----CCCEEEEEEESSTTSSHHHHHHHHHHHHHH-TTCCEEEEC--CEECSCCTTTCCCSHHHHHHHHHHTTCTTCCHHH
T ss_pred             hHHhhcCcEEEEEeCCCCCcHHHHHHHHHHHHHh-CCCceEEEe--eeecCCcccCCCCchHHHHHHHHHHHhCCCChHH
Confidence            3455668999999999999999999999999999 999999984  322111100000000000     00000001010


Q ss_pred             CCceeec--cccccCCCCCCccCC-chHHHHHHHHHHhccCCCccEEEEcCCCCCCccc---hhhhhh--ccCceEEEee
Q 022525          100 YGVKCMS--MGFLVPSSSPVVWRG-PMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ---LTTTQT--LQLSGALIVS  171 (295)
Q Consensus       100 ~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~---~~~~~l--~~ad~viiv~  171 (295)
                      .+...+.  ..+..+.  ...... ....+.+.+.++.+. ..||+||||+++|+....   .....+  ....-+|+|+
T Consensus        92 ~~p~~~~~p~sp~~aa--~~~g~~~~i~~~~I~~~~~~l~-~~~D~vlIEGagGl~~pl~~~~~~adlA~~l~~pVILV~  168 (242)
T 3qxc_A           92 ISFYRYHKVSAPLIAQ--QEEDPNAPIDTDNLTQRLHNFT-KTYDLVIVEGAGGLCVPITLEENMLDFALKLKAKMLLIS  168 (242)
T ss_dssp             HCCEECSSSSCHHHHH--HHHCTTCCCCHHHHHHHHHHGG-GTCSEEEEECCSCTTCBSSSSCBHHHHHHHHTCEEEEEE
T ss_pred             eeeEEECCCCChHHHH--HHcCCCCcCCHHHHHHHHHHHH-hcCCEEEEECCCCccccccccchHHHHHHHcCCCEEEEE
Confidence            1111100  0000000  000000 223567888888888 899999999999876421   111111  1124588899


Q ss_pred             CCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCcccccccc
Q 022525          172 TPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSD  248 (295)
Q Consensus       172 ~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~  248 (295)
                      .+...++..+...++.++..+.+ .|+|+|+++...     ......+.++++.......+++.++|.-+.+.+.+-
T Consensus       169 ~~~lg~i~~~~lt~~~l~~~g~~-~GvIlN~v~~~~-----~~~~~~~p~le~~~~~~~~~~~~~~~~~~~l~~~~~  239 (242)
T 3qxc_A          169 HDNLGLINDCLLNDFLLKSHQLD-YKIAINLKGNNT-----AFHSISLPYIELFNTRSNNPIVIFQQSLKVLMSFAL  239 (242)
T ss_dssp             CCSTTHHHHHHHHHHHHHTSSSC-EEEEECCCTTCC-----HHHHHTHHHHHHHHHHCSSCCEEGGGCHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHHhCCCC-EEEEEeCCCCcc-----chhhhhHHHHHHhcCcccCCceeccccHHHHHHHHh
Confidence            99888999999999999999999 999999997321     001111122444444445566666666655554443

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=99.49  E-value=3.8e-13  Score=120.50  Aligned_cols=166  Identities=15%  Similarity=0.196  Sum_probs=101.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+++|.+++. +|+||||++.+||.+|++ .|++|++||+|++.+....-+..-             ....++++.... 
T Consensus        99 ~p~vIlivG~-~G~GKTTt~~kLA~~l~~-~G~kVllv~~D~~R~aa~eqL~~~-------------~~~~gvpv~~~~-  162 (443)
T 3dm5_A           99 KPTILLMVGI-QGSGKTTTVAKLARYFQK-RGYKVGVVCSDTWRPGAYHQLRQL-------------LDRYHIEVFGNP-  162 (443)
T ss_dssp             SSEEEEEECC-TTSSHHHHHHHHHHHHHT-TTCCEEEEECCCSSTHHHHHHHHH-------------HGGGTCEEECCT-
T ss_pred             CCeEEEEECc-CCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCcchhHHHHHHHH-------------HHhcCCcEEecC-
Confidence            3688888766 999999999999999999 999999999999876432111100             011122222110 


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch------hhhhhccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL------TTTQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~------~~~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                           .     .......+...++.+....||+|||||++.......      .+......|.+++|+.+...  +++..
T Consensus       163 -----~-----~~dp~~i~~~al~~a~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~g--q~a~~  230 (443)
T 3dm5_A          163 -----Q-----EKDAIKLAKEGVDYFKSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIG--QQAYN  230 (443)
T ss_dssp             -----T-----CCCHHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGHHH
T ss_pred             -----C-----CCCHHHHHHHHHHHHHhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCc--hhHHH
Confidence                 0     011234445556655535799999999976543211      11223356888888877652  23333


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+.. ..++.|+|+|+++....          ......+....+.|+.
T Consensus       231 ~a~~f~~-~~~i~gVIlTKlD~~~~----------gG~~ls~~~~~g~PI~  270 (443)
T 3dm5_A          231 QALAFKE-ATPIGSIIVTKLDGSAK----------GGGALSAVAATGAPIK  270 (443)
T ss_dssp             HHHHHHH-SCTTEEEEEECCSSCSS----------HHHHHHHHHTTCCCEE
T ss_pred             HHHHHHh-hCCCeEEEEECCCCccc----------ccHHHHHHHHHCCCEE
Confidence            4444442 34677899999984211          1235566667787764

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=99.46  E-value=9e-13  Score=118.59  Aligned_cols=164  Identities=21%  Similarity=0.207  Sum_probs=99.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +++|+|+| .+|+||||++.+||..+++ .|++|++||+|++.+.....+..             .....++++++... 
T Consensus        99 ~~vI~ivG-~~GvGKTTla~~La~~l~~-~G~kVllv~~D~~r~~a~~qL~~-------------~~~~~gv~v~~~~~-  162 (432)
T 2v3c_C           99 QNVILLVG-IQGSGKTTTAAKLARYIQK-RGLKPALIAADTYRPAAYEQLKQ-------------LAEKIHVPIYGDET-  162 (432)
T ss_dssp             CCCEEEEC-CSSSSTTHHHHHHHHHHHH-HHCCEEEECCSCCCTTGGGSSHH-------------HHHHSSCCEECCSS-
T ss_pred             CeEEEEEC-CCCCCHHHHHHHHHHHHHH-cCCeEEEEeccccCchHHHHHHH-------------hhhccCcceEecCC-
Confidence            57888887 5999999999999999999 89999999999998764322210             01122344433220 


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh------hhhhccCceEEEeeCCCcchHHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT------TTQTLQLSGALIVSTPQDVALIDARKG  184 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~------~~~l~~ad~viiv~~~~~~s~~~~~~~  184 (295)
                          ..   .+.  ...+...+..+  ..||+|||||||........      ...+..+|.+++|+.+....  ++...
T Consensus       163 ----~~---~dp--~~i~~~~l~~~--~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~--~~~~~  229 (432)
T 2v3c_C          163 ----RT---KSP--VDIVKEGMEKF--KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQ--QAGIQ  229 (432)
T ss_dssp             ----SC---CSS--STTHHHHHHTT--SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGG--GHHHH
T ss_pred             ----CC---CCH--HHHHHHHHHHh--hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccH--HHHHH
Confidence                00   000  01123444444  68999999999876531111      11223578888887664431  33333


Q ss_pred             HHHHhcCCC-CeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          185 ITMFSKVQV-PILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       185 ~~~l~~~~~-~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .+.+. ... ++.++|+|+++....          ......+...++.++.
T Consensus       230 ~~~~~-~~~~~i~gvVlnK~D~~~~----------~g~~l~~~~~~~~pi~  269 (432)
T 2v3c_C          230 AKAFK-EAVGEIGSIIVTKLDGSAK----------GGGALSAVAETKAPIK  269 (432)
T ss_dssp             HHHHH-TTSCSCEEEEEECSSSCST----------THHHHHHHHHSSCCEE
T ss_pred             HHHHh-hcccCCeEEEEeCCCCccc----------hHHHHHHHHHHCCCEE
Confidence            44443 245 778999999984211          1224457777787765

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.44  E-value=6.5e-13  Score=121.32  Aligned_cols=167  Identities=16%  Similarity=0.125  Sum_probs=98.7

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      ..+++|+|++. +|+||||++.+||..+++ .|++|++||+|++.+.....+....             ...++++++..
T Consensus        99 ~~~~vI~ivG~-~GvGKTTl~~kLA~~l~~-~G~kVllVd~D~~r~aa~~qL~~~~-------------~~~~i~v~~~~  163 (504)
T 2j37_W           99 GKQNVIMFVGL-QGSGKTTTCSKLAYYYQR-KGWKTCLICADTFRAGAFDQLKQNA-------------TKARIPFYGSY  163 (504)
T ss_dssp             S--EEEEEECS-TTSSHHHHHHHHHHHHHH-TTCCEEEEEECCSSSHHHHHHHHHH-------------HHHTCCEEECC
T ss_pred             CCCeEEEEECC-CCCCHHHHHHHHHHHHHh-CCCeEEEEeccccchhHHHHHHHHh-------------hccCceEEccC
Confidence            34678999855 899999999999999999 9999999999998865432221100             01122222211


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh------hhhhccCceEEEeeCCCcchHHHHH
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT------TTQTLQLSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~------~~~l~~ad~viiv~~~~~~s~~~~~  182 (295)
                            ..     ......+...+..+.+..||+||||||+........      ......+|.+++|+.+.... . ..
T Consensus       164 ------~~-----~dp~~i~~~al~~~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~-~-~~  230 (504)
T 2j37_W          164 ------TE-----MDPVIIASEGVEKFKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQ-A-CE  230 (504)
T ss_dssp             ------CC-----SCHHHHHHHHHHHHHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCT-T-HH
T ss_pred             ------CC-----CCHHHHHHHHHHHHHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccc-c-HH
Confidence                  00     011222334444443378999999999876521111      11123678888888776531 1 23


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ...+.+.+. .++.++|+|+++....          ......+...+|.|+.
T Consensus       231 ~~a~~~~~~-~~i~gvVlNK~D~~~~----------~g~~l~~~~~~g~PI~  271 (504)
T 2j37_W          231 AQAKAFKDK-VDVASVIVTKLDGHAK----------GGGALSAVAATKSPII  271 (504)
T ss_dssp             HHHHHHHHH-HCCCCEEEECTTSCCC----------CTHHHHHHHHHCCCEE
T ss_pred             HHHHHHHhh-cCceEEEEeCCccccc----------hHHHHHHHHHhCCCeE
Confidence            333444332 4556899999984311          1224456677887764

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=99.39  E-value=6.1e-12  Score=112.72  Aligned_cols=215  Identities=19%  Similarity=0.166  Sum_probs=111.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+++|+++ +.+|+||||++.+||..++. .|++|+++|+|++.+.....+..             .....++.+...  
T Consensus        96 ~~~vI~lv-G~~GsGKTTt~~kLA~~l~~-~G~kVllv~~D~~r~~a~eqL~~-------------~~~~~gv~~~~~--  158 (433)
T 3kl4_A           96 LPFIIMLV-GVQGSGKTTTAGKLAYFYKK-RGYKVGLVAADVYRPAAYDQLLQ-------------LGNQIGVQVYGE--  158 (433)
T ss_dssp             SSEEEEEC-CCTTSCHHHHHHHHHHHHHH-TTCCEEEEEECCSCHHHHHHHHH-------------HHHTTTCCEECC--
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEEecCccchhHHHHHHH-------------HHHhcCCceeec--
Confidence            46788876 67899999999999999999 99999999999876432111100             000111111111  


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCC--ccch------hhhhhccCceEEEeeCCCcchHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTG--DAQL------TTTQTLQLSGALIVSTPQDVALIDA  181 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~--~~~~------~~~~l~~ad~viiv~~~~~~s~~~~  181 (295)
                          ..     ...........+..+.+..||+||||||+...  ....      .+......+.+++|..+...  +++
T Consensus       159 ----~~-----~~dp~~i~~~al~~a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~g--q~a  227 (433)
T 3kl4_A          159 ----PN-----NQNPIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIG--QKA  227 (433)
T ss_dssp             ----TT-----CSCHHHHHHHHHHHTTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGG
T ss_pred             ----cc-----cCCHHHHHHHHHHHHHhcCCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccc--hHH
Confidence                00     01122334455666654789999999997544  2111      11122245788888776542  233


Q ss_pred             HHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCCh
Q 022525          182 RKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST  261 (295)
Q Consensus       182 ~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~  261 (295)
                      ....+.+.+ ..++.++|+|+++....          ......+....|.|+. ++-..+.+.       .+-...|+.-
T Consensus       228 ~~~a~~f~~-~~~~~gVIlTKlD~~a~----------~G~als~~~~~g~Pi~-fig~Ge~v~-------dL~~f~p~~~  288 (433)
T 3kl4_A          228 YDLASRFHQ-ASPIGSVIITKMDGTAK----------GGGALSAVVATGATIK-FIGTGEKID-------ELETFNAKRF  288 (433)
T ss_dssp             HHHHHHHHH-HCSSEEEEEECGGGCSC----------HHHHHHHHHHHTCEEE-EEECCSSSS-------CEEECCHHHH
T ss_pred             HHHHHHHhc-ccCCcEEEEeccccccc----------chHHHHHHHHHCCCEE-EEECCCChH-------hCccCCHHHH
Confidence            334444442 23567899999984311          1235566667787764 222222221       1222333322


Q ss_pred             HHH-----HHHHHHHHHHHHHHHHHHhhcCCCccc
Q 022525          262 VSR-----AYGEVAVNVVNRLQELAKEQEHPESNS  291 (295)
Q Consensus       262 ~~~-----~~~~l~~~l~~~~~~~~~~~~~~~~~~  291 (295)
                      +.+     ++..|.+++.+.+.+..+++-..++++
T Consensus       289 ~~~llg~gd~~~l~e~~~~~~~~~~~~~~~~k~~~  323 (433)
T 3kl4_A          289 VSRILGMGDIESILEKVKGLEEYDKIQKKMEDVME  323 (433)
T ss_dssp             HHHHHCSSHHHHHHHHHHHC---------------
T ss_pred             HHHhcCCchHHHHHHHHHHhhhHHHHHHHHHHHHc
Confidence            222     566777777666655543333333333

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=99.29  E-value=5.7e-11  Score=102.14  Aligned_cols=166  Identities=19%  Similarity=0.166  Sum_probs=97.2

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      ..+++|+++|. +|+||||++.+||..++. .|.+|+++|+|.+.+....-+.     .+        ....++.+++..
T Consensus       102 ~~~~vi~ivG~-~GsGKTTl~~~LA~~l~~-~g~kV~lv~~D~~r~~a~eqL~-----~~--------~~~~gl~~~~~~  166 (306)
T 1vma_A          102 EPPFVIMVVGV-NGTGKTTSCGKLAKMFVD-EGKSVVLAAADTFRAAAIEQLK-----IW--------GERVGATVISHS  166 (306)
T ss_dssp             SSCEEEEEECC-TTSSHHHHHHHHHHHHHH-TTCCEEEEEECTTCHHHHHHHH-----HH--------HHHHTCEEECCS
T ss_pred             CCCeEEEEEcC-CCChHHHHHHHHHHHHHh-cCCEEEEEccccccHHHHHHHH-----HH--------HHHcCCcEEecC
Confidence            34789999987 999999999999999999 9999999999987643210000     00        011122332211


Q ss_pred             cccCCCCCCccCCchHHHH-HHHHHHhccCCCccEEEEcCCCCCCccchhhh-------hh-----ccCceEEEeeCCCc
Q 022525          109 FLVPSSSPVVWRGPMVMSA-LRKMSREVDWGNLDILVIDMPPGTGDAQLTTT-------QT-----LQLSGALIVSTPQD  175 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~-l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~-------~l-----~~ad~viiv~~~~~  175 (295)
                            ..   .+  .... ...+...+. ..||+||+|+|+..........       .+     ...+.+++|.....
T Consensus       167 ------s~---~~--~~~v~~~al~~a~~-~~~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t  234 (306)
T 1vma_A          167 ------EG---AD--PAAVAFDAVAHALA-RNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT  234 (306)
T ss_dssp             ------TT---CC--HHHHHHHHHHHHHH-TTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG
T ss_pred             ------Cc---cC--HHHHHHHHHHHHHh-cCCCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCC
Confidence                  00   01  1111 122223344 7899999999976432111000       01     12577788876652


Q ss_pred             chHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          176 VALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       176 ~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                       . .+.....+.+.+ ..++.|+|+|+++.....          ..+..+...++.|+.
T Consensus       235 -~-~~~l~~a~~~~~-~~~i~gvVlTk~D~~~~g----------G~~l~~~~~~~~Pi~  280 (306)
T 1vma_A          235 -G-QNGLVQAKIFKE-AVNVTGIILTKLDGTAKG----------GITLAIARELGIPIK  280 (306)
T ss_dssp             -H-HHHHHHHHHHHH-HSCCCEEEEECGGGCSCT----------THHHHHHHHHCCCEE
T ss_pred             -C-HHHHHHHHHHHh-cCCCCEEEEeCCCCccch----------HHHHHHHHHHCCCEE
Confidence             2 233333333332 256789999999843221          347788888888776

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=99.26  E-value=6e-11  Score=101.67  Aligned_cols=161  Identities=16%  Similarity=0.131  Sum_probs=94.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+++|++++. +|+||||++.+||..++...|++|+++|+|++.+.....+....             ...++.+...  
T Consensus       104 ~g~vi~lvG~-~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~-------------~~~gl~~~~~--  167 (296)
T 2px0_A          104 HSKYIVLFGS-TGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYA-------------ELLQAPLEVC--  167 (296)
T ss_dssp             CSSEEEEEES-TTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHH-------------TTTTCCCCBC--
T ss_pred             CCcEEEEECC-CCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHH-------------HhcCCCeEec--
Confidence            4689999876 89999999999999999437999999999997644321111000             0011111100  


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh---hhhhc---cCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT---TTQTL---QLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~---~~~l~---~ad~viiv~~~~~~s~~~~~~  183 (295)
                                ..   ...+...+..+  .+||+||+||++........   +..+.   ..+.+++++.... ....+..
T Consensus       168 ----------~~---~~~l~~al~~~--~~~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~-~~~~~~~  231 (296)
T 2px0_A          168 ----------YT---KEEFQQAKELF--SEYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATA-KYEDMKH  231 (296)
T ss_dssp             ----------SS---HHHHHHHHHHG--GGSSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTB-CHHHHHH
T ss_pred             ----------CC---HHHHHHHHHHh--cCCCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCC-CHHHHHH
Confidence                      00   13345555554  57999999998655422111   11122   2455566653333 3444555


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..+.+.  .....++|+|+++....          ......+...+|.++.
T Consensus       232 ~~~~~~--~l~~~giVltk~D~~~~----------~g~~~~~~~~~~~pi~  270 (296)
T 2px0_A          232 IVKRFS--SVPVNQYIFTKIDETTS----------LGSVFNILAESKIGVG  270 (296)
T ss_dssp             HTTTTS--SSCCCEEEEECTTTCSC----------CHHHHHHHHTCSCCCS
T ss_pred             HHHHHh--cCCCCEEEEeCCCcccc----------hhHHHHHHHHHCcCEE
Confidence            444444  34567899999984311          1346677777777654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=99.13  E-value=1.6e-10  Score=94.09  Aligned_cols=44  Identities=18%  Similarity=0.127  Sum_probs=40.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPS   75 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~   75 (295)
                      ++...|+++||||||||++.++|..+++ .|++|+++|+|+|+..
T Consensus         5 g~l~I~~~~kgGvGKTt~a~~la~~l~~-~G~~V~v~d~D~q~~~   48 (228)
T 2r8r_A            5 GRLKVFLGAAPGVGKTYAMLQAAHAQLR-QGVRVMAGVVETHGRA   48 (228)
T ss_dssp             CCEEEEEESSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCCTTCH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHH-CCCCEEEEEeCCCCCh
Confidence            6788888999999999999999999999 9999999999998744

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.11  E-value=2.2e-10  Score=100.85  Aligned_cols=149  Identities=15%  Similarity=0.144  Sum_probs=78.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCccccc-ccCCceeeccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPI-ENYGVKCMSMG  108 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~  108 (295)
                      ..+|+++ +++|+||||++.+|+..++. .|++|+++|+|++.+... .+++        +....... ...++.+.+..
T Consensus        79 ~~~I~i~-G~~G~GKSTl~~~L~~~l~~-~g~kV~vi~~Dp~~~~~~g~~l~--------d~~~~~~~~~~~~~~i~~~~  148 (355)
T 3p32_A           79 AHRVGIT-GVPGVGKSTAIEALGMHLIE-RGHRVAVLAVDPSSTRTGGSILG--------DKTRMARLAVHPNAYIRPSP  148 (355)
T ss_dssp             SEEEEEE-CCTTSSHHHHHHHHHHHHHT-TTCCEEEEEEC------------------------CHHHHTCTTEEEECCC
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHHHh-CCCceEEEecCCCCCcccchhcc--------chhhHHhhccCCCeeEEECC
Confidence            5677775 67999999999999999999 999999999999875321 1111        10000000 11222222211


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHH
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMF  188 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l  188 (295)
                            ....  ...........+..+....||++||||| |+....  ...+..+|.+++|+.+.......  .....+
T Consensus       149 ------~~~~--~~~~~~~t~d~i~~~~~~~~~~iiiDTp-Gi~~~~--~~~~~~aD~vl~V~d~~~~~~~~--~l~~~~  215 (355)
T 3p32_A          149 ------TSGT--LGGVTRATRETVVLLEAAGFDVILIETV-GVGQSE--VAVANMVDTFVLLTLARTGDQLQ--GIKKGV  215 (355)
T ss_dssp             --------CC--HHHHHHHHHHHHHHHHHTTCCEEEEEEC-SCSSHH--HHHHTTCSEEEEEEESSTTCTTT--TCCTTS
T ss_pred             ------CCcc--ccchhHHHHHHHHHHhhCCCCEEEEeCC-CCCcHH--HHHHHhCCEEEEEECCCCCccHH--HHHHhH
Confidence                  0000  0011222233333333378999999998 555322  23346899999999876542110  000001


Q ss_pred             hcCCCCeeeEEeccccC
Q 022525          189 SKVQVPILGLVENMSCF  205 (295)
Q Consensus       189 ~~~~~~~~~~ViN~~~~  205 (295)
                        ...+ ..+|+||.|.
T Consensus       216 --~~~p-~ivVlNK~Dl  229 (355)
T 3p32_A          216 --LELA-DIVVVNKADG  229 (355)
T ss_dssp             --GGGC-SEEEEECCCG
T ss_pred             --hhcC-CEEEEECCCC
Confidence              1123 3599999983

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=98.92  E-value=3.3e-09  Score=92.86  Aligned_cols=150  Identities=15%  Similarity=0.134  Sum_probs=76.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCcccccccCCceeecccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      +.+|++++ ++|+||||+..+|+..++. .|.+|.++|.|++.+... .+++....  ...           +...+.+.
T Consensus        56 ~~~i~i~G-~~g~GKSTl~~~l~~~~~~-~~~~v~v~~~d~~~~~~~~~il~d~~~--~~~-----------~~~~~~~~  120 (341)
T 2p67_A           56 TLRLGVTG-TPGAGKSTFLEAFGMLLIR-EGLKVAVIAVDPSSPVTGGSILGDKTR--MND-----------LARAEAAF  120 (341)
T ss_dssp             SEEEEEEE-CTTSCHHHHHHHHHHHHHH-TTCCEEEEEECCC-----------------CT-----------TTTCTTEE
T ss_pred             CEEEEEEc-CCCCCHHHHHHHHHHHHHh-cCCeEEEEeecCCcCCCCcceecccch--HHh-----------hccCCCce
Confidence            68888875 9999999999999999999 999999999999875432 12221100  000           00000111


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHh
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFS  189 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~  189 (295)
                      ..+...... .+.. ...+...+..+.+.+|+++|+|||+.... ..  .....+|.+++|+.+.....  . ..+.. .
T Consensus       121 i~~~~~~~~-l~g~-~~~~~~~~~~~~~~~~~i~liDTpG~~~~-~~--~~~~~aD~vl~Vvd~~~~~~--~-~~l~~-~  191 (341)
T 2p67_A          121 IRPVPSSGH-LGGA-SQRARELMLLCEAAGYDVVIVETVGVGQS-ET--EVARMVDCFISLQIAGGGDD--L-QGIKK-G  191 (341)
T ss_dssp             EEEECC------CH-HHHHHHHHHHHHHTTCSEEEEEEECCTTH-HH--HHHTTCSEEEEEECC---------CCCCH-H
T ss_pred             eecCccccc-cchh-HHHHHHHHHHhhccCCCEEEEeCCCccch-HH--HHHHhCCEEEEEEeCCccHH--H-HHHHH-h
Confidence            000000000 0011 12222222222227899999999854332 22  23568999999998864321  1 00000 0


Q ss_pred             cCCCCeeeEEeccccC
Q 022525          190 KVQVPILGLVENMSCF  205 (295)
Q Consensus       190 ~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+. .+|+||.+.
T Consensus       192 ~~~~p~-ivv~NK~Dl  206 (341)
T 2p67_A          192 LMEVAD-LIVINKDDG  206 (341)
T ss_dssp             HHHHCS-EEEECCCCT
T ss_pred             hhcccC-EEEEECCCC
Confidence            012233 489999984

>4a0g_A Adenosylmethionine-8-amino-7-oxononanoate aminotransferase; BIO3-BIO1, biotin synthesis; HET: PLP; 2.50A {Arabidopsis thaliana} PDB: 4a0h_A* 4a0r_A* 4a0f_A*

Probab=98.62  E-value=9e-07  Score=85.95  Aligned_cols=92  Identities=9%  Similarity=0.061  Sum_probs=59.4

Q ss_pred             CccEEEEcCCCCCCcc------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCC
Q 022525          139 NLDILVIDMPPGTGDA------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      .+|++||....|+...      ...+.....+ -||+|......++..+...++.+...+.++.|+|+|+...       
T Consensus       201 ~~D~vvVEGaGGl~~p~~~~~~~adla~~l~~-PVILV~d~~lG~i~~~~lt~~~l~~~g~~v~GvI~N~~~~-------  272 (831)
T 4a0g_A          201 SDLLCLVETAGGVASPGPSGTLQCDLYRPFRL-PGILVGDGRLGGISGTIAAYESLKLRGYDIAAVVFEDHGL-------  272 (831)
T ss_dssp             -CEEEEEECCSSTTCBCTTSCBHHHHTGGGCC-CEEEECCCSTTHHHHHHHHHHHHHTTTCCEEEEEEECCSS-------
T ss_pred             cCCEEEEECCCCccCCCCCCccHHHHHHHcCC-CEEEEECCCCcHHHHHHHHHHHHHHCCCcEEEEEEeCCch-------
Confidence            7999999998765421      1122222222 3677777788889999999999988899999999997641       


Q ss_pred             CccccCCchhhHH-HHHhCCcEEEeecCCcc
Q 022525          213 PSFIFGKGGTHRT-AAEMGLKVIGEIPIEMD  242 (295)
Q Consensus       213 ~~~~~~~~~~~~~-~~~~g~~~~~~Ip~~~~  242 (295)
                      ..    .+...+. .+..++++++++|+.+.
T Consensus       273 ~~----~~~l~~~l~~~~~v~vLg~lP~~~~  299 (831)
T 4a0g_A          273 VN----EVPLTSYLRNKVPVLVLPPVPKDPS  299 (831)
T ss_dssp             CT----HHHHHHHTTTSSCEEEECCCCCCTT
T ss_pred             hH----HHHHHHHHHhCCCceeeCCCCCCCH
Confidence            00    0112222 22346666788887654

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=98.49  E-value=8.5e-06  Score=73.81  Aligned_cols=164  Identities=15%  Similarity=0.148  Sum_probs=89.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +.+|+|++. .|+||||+...||..+.. .+.+|++.+.|........-+.     .+.        ...++.++..   
T Consensus       293 GeVI~LVGp-NGSGKTTLl~~LAgll~~-~~G~V~l~g~D~~r~aa~eQL~-----~~~--------~r~~I~vV~Q---  354 (503)
T 2yhs_A          293 PFVILMVGV-NGVGKTTTIGKLARQFEQ-QGKSVMLAAGDTFRAAAVEQLQ-----VWG--------QRNNIPVIAQ---  354 (503)
T ss_dssp             TEEEEEECC-TTSSHHHHHHHHHHHHHH-TTCCEEEECCCTTCHHHHHHHH-----HHH--------HHHTCCEECC---
T ss_pred             CeEEEEECC-CcccHHHHHHHHHHHhhh-cCCeEEEecCcccchhhHHHHH-----HHH--------HhcCceEEec---
Confidence            689999855 899999999999999998 8999999988875421000000     000        0011111111   


Q ss_pred             cCCCCCCccCCchHHHHHHH-HHHhccCCCccEEEEcCCCCCCccchhhhh---h---------ccCceEEEeeCCCcch
Q 022525          111 VPSSSPVVWRGPMVMSALRK-MSREVDWGNLDILVIDMPPGTGDAQLTTTQ---T---------LQLSGALIVSTPQDVA  177 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~-~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~---l---------~~ad~viiv~~~~~~s  177 (295)
                         ....     .....+.. +..... .+||+|||||++...........   +         ..-+.++++..+... 
T Consensus       355 ---~~~~-----~p~~tV~e~l~~a~~-~~~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattG-  424 (503)
T 2yhs_A          355 ---HTGA-----DSASVIFDAIQAAKA-RNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG-  424 (503)
T ss_dssp             ---STTC-----CHHHHHHHHHHHHHH-TTCSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGT-
T ss_pred             ---ccCc-----CHHHHHHHHHHHHHh-cCCCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCccc-
Confidence               0000     01112222 222233 78999999999765422111111   0         013466777665542 


Q ss_pred             HHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          178 LIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                       ++....++.+.+ ...+-++|+|+.+....          -..+..+...++.++.
T Consensus       425 -q~al~~ak~f~~-~~~itgvIlTKLD~tak----------gG~~lsi~~~~~~PI~  469 (503)
T 2yhs_A          425 -QNAVSQAKLFHE-AVGLTGITLTKLDGTAK----------GGVIFSVADQFGIPIR  469 (503)
T ss_dssp             -HHHHHHHHHHHH-HTCCSEEEEECGGGCSC----------CTHHHHHHHHHCCCEE
T ss_pred             -HHHHHHHHHHHh-hcCCCEEEEEcCCCccc----------ccHHHHHHHHHCCCEE
Confidence             333344444432 12345799999884211          1346677777887765

>2obn_A Hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, unknown function; HET: PG4; 2.30A {Anabaena variabilis}

Probab=98.48  E-value=1.9e-06  Score=74.53  Aligned_cols=167  Identities=17%  Similarity=0.133  Sum_probs=111.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      ++.|.+++.--.|||||++..|...+.+ +|.++..+-     +..+-.+- .. .+       .+     .+.+.    
T Consensus       152 ~k~i~v~GTD~~VGK~~ts~~L~~~l~~-~G~~a~~~~-----tgqtg~~~-~~-~g-------i~-----~Dav~----  207 (349)
T 2obn_A          152 CRRVLTVGTDMAIGKMSTSLELHWAAKL-RGWRSKFLA-----TGQTGVML-EG-DG-------VA-----LDAVR----  207 (349)
T ss_dssp             SEEEEEEESSSSSSHHHHHHHHHHHHHH-TTCCEEEEC-----CSHHHHHH-HS-CS-------CC-----GGGSB----
T ss_pred             ceEEEEcCCCccccceeHHHHHHHHHHh-cCCcEEEEe-----ccchhhhh-hc-CC-------cc-----hhHHH----
Confidence            6899999999999999999999999999 999998852     11111110 00 00       00     00000    


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch--h--hhhhccCceEEEeeCCCcchH--------
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL--T--TTQTLQLSGALIVSTPQDVAL--------  178 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~--~--~~~l~~ad~viiv~~~~~~s~--------  178 (295)
                                ....+..+..+...+. ++||+|+|...+++.....  +  +..-...|.+|++..+....+        
T Consensus       208 ----------~df~aG~ve~~~~~~~-~~~d~vlVEGqGgl~~P~~~~t~~ll~g~~p~~vILv~~~~~g~i~~~~~~~~  276 (349)
T 2obn_A          208 ----------VDFAAGAVEQMVMRYG-KNYDILHIEGQGSLLHPGSTATLPLIRGSQPTQLVLVHRAGQTHNGNNPHVPI  276 (349)
T ss_dssp             ----------HHHHHHHHHHHHHHHT-TTCSEEEECCCCCTTSTTCCTHHHHHHHHCCSEEEEEEETTCCBCSSCTTSBC
T ss_pred             ----------HHHHhhhHHHHHHHhc-cCCCEEEEeCCCcccCcChHhHHHHHHHcCCCeEEEEECCCCceECCCCccCC
Confidence                      0112234555666666 7899999999988764321  1  112223477999988877666        


Q ss_pred             ---HHHHHHHHHHhc-----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCC
Q 022525          179 ---IDARKGITMFSK-----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIE  240 (295)
Q Consensus       179 ---~~~~~~~~~l~~-----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~  240 (295)
                         .....+++.+..     .+.++.|+++|.+...        ....++..+++.+.+|+|++..+.+.
T Consensus       277 p~l~~~i~t~e~l~~~~~~~~~~~V~Gi~lN~~~~~--------~~~~~~~~~~ie~~~glPv~d~~r~g  338 (349)
T 2obn_A          277 PPLPEVIRLYETVASGGGAFGTVPVVGIALNTAHLD--------EYAAKEAIAHTIAETGLPCTDVVRFG  338 (349)
T ss_dssp             CCHHHHHHHHHHHHHTTTTSCCCCEEEEEEECTTSC--------HHHHHHHHHHHHHHHCSCEECHHHHC
T ss_pred             CCHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCC--------HHHHHHHHHHHHHHHCCCEEEEecCC
Confidence               777777777755     6789999999987631        11123568888899999999877654

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=98.42  E-value=2.7e-06  Score=73.69  Aligned_cols=167  Identities=16%  Similarity=0.130  Sum_probs=93.9

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      ..+.+|+++++ .|+||||+...||..+.. .|.+|++++.|.........+..             .....++.+++. 
T Consensus       127 ~~g~vi~lvG~-nGaGKTTll~~Lag~l~~-~~g~V~l~g~D~~r~~a~eql~~-------------~~~~~gv~~v~q-  190 (328)
T 3e70_C          127 EKPYVIMFVGF-NGSGKTTTIAKLANWLKN-HGFSVVIAASDTFRAGAIEQLEE-------------HAKRIGVKVIKH-  190 (328)
T ss_dssp             CSSEEEEEECC-TTSSHHHHHHHHHHHHHH-TTCCEEEEEECCSSTTHHHHHHH-------------HHHHTTCEEECC-
T ss_pred             CCCeEEEEECC-CCCCHHHHHHHHHHHHHh-cCCEEEEEeecccccchHHHHHH-------------HHHHcCceEEec-
Confidence            34789999865 899999999999999999 89999999999865332110000             000111212111 


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh------hhhhccCceEEEeeCCCcchHHHHH
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT------TTQTLQLSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~------~~~l~~ad~viiv~~~~~~s~~~~~  182 (295)
                           .....    ........+..... ..+|++++|+++........      +......|..+++.++...  +++.
T Consensus       191 -----~~~~~----p~~~v~e~l~~~~~-~~~d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~--~~~~  258 (328)
T 3e70_C          191 -----SYGAD----PAAVAYDAIQHAKA-RGIDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAG--NAIV  258 (328)
T ss_dssp             -----CTTCC----HHHHHHHHHHHHHH-HTCSEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGT--THHH
T ss_pred             -----cccCC----HHHHHHHHHHHHHh-ccchhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHH--HHHH
Confidence                 00000    01111222222223 67999999999765421111      1122346777777765443  3444


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..++.+.+ ...+-++|+|+.+....          ....-.+....+.++.
T Consensus       259 ~~~~~~~~-~~~it~iilTKlD~~a~----------~G~~l~~~~~~~~pi~  299 (328)
T 3e70_C          259 EQARQFNE-AVKIDGIILTKLDADAR----------GGAALSISYVIDAPIL  299 (328)
T ss_dssp             HHHHHHHH-HSCCCEEEEECGGGCSC----------CHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHH-hcCCCEEEEeCcCCccc----------hhHHHHHHHHHCCCEE
Confidence            44444442 12445699999984211          1335567777787766

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=98.31  E-value=1.1e-05  Score=77.13  Aligned_cols=92  Identities=14%  Similarity=0.068  Sum_probs=65.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..|++.|+|||+..+........+..+|.+|+|+.+.......+...+..+...+.+.+ +|+|+.|.....        
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~~~ip~i-lviNKiD~~~~~--------  150 (704)
T 2rdo_7           80 EPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQANKYKVPRI-AFVNKMDRMGAN--------  150 (704)
T ss_pred             CceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCEE-EEEeCCCccccc--------
Confidence            56999999999866543445566778999999999887666666777777777788876 899999843211        


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      .....+++.+.++..++. .+|
T Consensus       151 ~~~~~~~l~~~l~~~~~~~~~P  172 (704)
T 2rdo_7          151 FLKVVNQIKTRLGANPVPLQLA  172 (704)
T ss_pred             HHHHHHHHHHHhCCCceeEEcc
Confidence            124567777777765543 555

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=98.21  E-value=7e-06  Score=75.75  Aligned_cols=89  Identities=12%  Similarity=-0.048  Sum_probs=63.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.|+|||+..+........+..+|.+|+|+.+...........+..+...+.++ .+|+|+.+....       . 
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ipi-ivviNK~Dl~~~-------~-  150 (529)
T 2h5e_A           80 HDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPI-LTFMNKLDRDIR-------D-  150 (529)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTTTTCCE-EEEEECTTSCCS-------C-
T ss_pred             CCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHHHcCCCE-EEEEcCcCCccc-------c-
Confidence            5688999999976554344556677899999999987765566677777777778886 499999984211       0 


Q ss_pred             CCchhhHHHHHhCCcEEE
Q 022525          218 GKGGTHRTAAEMGLKVIG  235 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~  235 (295)
                      .....+++.+.++.....
T Consensus       151 ~~~~~~~i~~~l~~~~~~  168 (529)
T 2h5e_A          151 PMELLDEVENELKIGCAP  168 (529)
T ss_dssp             HHHHHHHHHHHHCCEEEE
T ss_pred             HHHHHHHHHHHhCCCccc
Confidence            113477888888887654

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=98.06  E-value=0.00037  Score=59.60  Aligned_cols=42  Identities=29%  Similarity=0.320  Sum_probs=37.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+.+|++++ ..|+||||+...||..+.. .+.+|++.+.|...
T Consensus       101 ~g~vi~lvG-~nGsGKTTll~~Lagll~~-~~g~V~l~g~D~~r  142 (304)
T 1rj9_A          101 KGRVVLVVG-VNGVGKTTTIAKLGRYYQN-LGKKVMFCAGDTFR  142 (304)
T ss_dssp             SSSEEEEEC-STTSSHHHHHHHHHHHHHT-TTCCEEEECCCCSS
T ss_pred             CCeEEEEEC-CCCCcHHHHHHHHHHHHHh-cCCEEEEEeecCCC
Confidence            478999985 5899999999999999998 89999999999765

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=97.93  E-value=4.2e-05  Score=61.98  Aligned_cols=40  Identities=20%  Similarity=0.276  Sum_probs=33.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .++|+|+ +.+|+||||+..+|+..+.. . .+|.+|+.|++.
T Consensus        30 ~~~i~i~-G~~g~GKTTl~~~l~~~~~~-~-~~~~~i~~d~~~   69 (221)
T 2wsm_A           30 TVAVNIM-GAIGSGKTLLIERTIERIGN-E-VKIGAMLGDVVS   69 (221)
T ss_dssp             CEEEEEE-ECTTSCHHHHHHHHHHHHTT-T-SCEEEEECSCCC
T ss_pred             ceEEEEE-cCCCCCHHHHHHHHHHHhcc-C-CeEEEEecCCCC
Confidence            4667776 68999999999999998866 5 899999998853

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.92  E-value=0.00027  Score=61.66  Aligned_cols=43  Identities=23%  Similarity=0.230  Sum_probs=35.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPS   75 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~   75 (295)
                      ..+|+++ +..|+||||+.-.|+..+.. .+.+|.++..|++...
T Consensus        74 ~~~v~lv-G~pgaGKSTLln~L~~~~~~-~~~~v~V~~~dp~~~~  116 (349)
T 2www_A           74 AFRVGLS-GPPGAGKSTFIEYFGKMLTE-RGHKLSVLAVDPSSCT  116 (349)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHH-TTCCEEEEECCC----
T ss_pred             ceEEEEE-cCCCCCHHHHHHHHHHHhhh-cCCeEEEEeecCCCCC
Confidence            5677776 89999999999999999998 8999999999998643

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=97.74  E-value=0.00052  Score=52.16  Aligned_cols=88  Identities=15%  Similarity=0.097  Sum_probs=52.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+++.++|+|+...........+..+|.++++..... .++..+...++.+..    .+.++ .+|+|+.|....    
T Consensus        49 ~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~-iiv~nK~Dl~~~----  123 (166)
T 2ce2_X           49 ETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM-VLVGNKSDLAAR----  123 (166)
T ss_dssp             EEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCE-EEEEECTTCSCC----
T ss_pred             EEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEEEchhhhhc----
Confidence            45789999999755433333445567898888887654 344555555554433    24555 499999985321    


Q ss_pred             CccccCCchhhHHHHHhCCcE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~  233 (295)
                         .......+++.+.++.++
T Consensus       124 ---~~~~~~~~~~~~~~~~~~  141 (166)
T 2ce2_X          124 ---TVESRQAQDLARSYGIPY  141 (166)
T ss_dssp             ---CSCHHHHHHHHHHHTCCE
T ss_pred             ---ccCHHHHHHHHHHcCCeE
Confidence               111234566666666543

>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=97.72  E-value=0.00024  Score=56.33  Aligned_cols=38  Identities=29%  Similarity=0.330  Sum_probs=32.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.++ ++.++| .||||.|..+|...+. +|++|+++-+..
T Consensus        29 g~i~-v~tG~G-kGKTTaA~GlalRA~g-~G~rV~~vQF~K   66 (196)
T 1g5t_A           29 GIII-VFTGNG-KGKTTAAFGTAARAVG-HGKNVGVVQFIK   66 (196)
T ss_dssp             CCEE-EEESSS-SCHHHHHHHHHHHHHH-TTCCEEEEESSC
T ss_pred             ceEE-EECCCC-CCHHHHHHHHHHHHHH-CCCeEEEEEeeC
Confidence            4444 445777 9999999999999999 999999997775

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=97.72  E-value=0.00034  Score=66.91  Aligned_cols=92  Identities=15%  Similarity=0.041  Sum_probs=73.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      +.|-+=|||||+..+...-....|..+|.+|+|++....-...+...++++.+.+++++ +++|++|....       . 
T Consensus        83 ~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~~lp~i-~~iNKiDr~~a-------~-  153 (709)
T 4fn5_A           83 DNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKYGVPRI-VYVNKMDRQGA-------N-  153 (709)
T ss_dssp             CCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHHTCCEE-EEEECSSSTTC-------C-
T ss_pred             CCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHcCCCeE-EEEccccccCc-------c-
Confidence            46778899999988876667778889999999999998888899999999999999986 99999993211       1 


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      -...++++.+.++..+.. .+|
T Consensus       154 ~~~~~~ei~~~l~~~~~~~~~p  175 (709)
T 4fn5_A          154 FLRVVEQIKKRLGHTPVPVQLA  175 (709)
T ss_dssp             HHHHHHHHHHHHCSCEEESEEE
T ss_pred             HHHHHHHhhhhcccceeeeecc
Confidence            124578888888876654 444

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=97.69  E-value=6.3e-05  Score=58.47  Aligned_cols=41  Identities=22%  Similarity=0.177  Sum_probs=35.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +++|+|++ ..|+||||++..|+..|.. +|.+|.+|..|+..
T Consensus         4 ~~~i~i~G-~sGsGKTTl~~~L~~~l~~-~g~~v~~ik~~~~~   44 (169)
T 1xjc_A            4 MNVWQVVG-YKHSGKTTLMEKWVAAAVR-EGWRVGTVKHHGHG   44 (169)
T ss_dssp             CCEEEEEC-CTTSSHHHHHHHHHHHHHH-TTCCEEEEECCC--
T ss_pred             CEEEEEEC-CCCCCHHHHHHHHHHhhHh-cCCeeeEEEeCCCC
Confidence            68899987 5599999999999999999 99999999999864

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=97.69  E-value=0.00021  Score=61.32  Aligned_cols=66  Identities=12%  Similarity=0.104  Sum_probs=45.0

Q ss_pred             CccEEEEcCCCCCCcc----------chhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDA----------QLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~----------~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.++|+|||+.....          ......+..+|.+++|+..+.. +.......++.+...+.+++ +|+|+.|.
T Consensus        58 ~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~~~pvi-lV~NK~Dl  134 (308)
T 3iev_A           58 EAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNKPVI-VVINKIDK  134 (308)
T ss_dssp             TEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGGCCCEE-EEEECGGG
T ss_pred             CCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhcCCCEE-EEEECccC
Confidence            6889999999644321          1223445679999999988764 33433333777777677765 99999984

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=97.68  E-value=0.00021  Score=68.03  Aligned_cols=92  Identities=13%  Similarity=0.036  Sum_probs=63.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.|+|||+..+........+..+|.+|+|+++...........+..+...+.+++ +|+|+.|....       . 
T Consensus        73 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~~~~p~i-lviNK~Dl~~~-------~-  143 (693)
T 2xex_A           73 EGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGVPRI-VFVNKMDKLGA-------N-  143 (693)
T ss_dssp             TTEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEE-EEEECTTSTTC-------C-
T ss_pred             CCeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHHHHHcCCCEE-EEEECCCcccc-------c-
Confidence            46889999999766544445566778999999999877555556666777777777776 89999984311       0 


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      .....+++.+.++..... .+|
T Consensus       144 ~~~~~~~l~~~l~~~~~~~~ip  165 (693)
T 2xex_A          144 FEYSVSTLHDRLQANAAPIQLP  165 (693)
T ss_dssp             HHHHHHHHHHHHCCCEEESEEE
T ss_pred             hHHHHHHHHHHhCCCceeEEee
Confidence            113466777777765432 455

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=97.67  E-value=0.00051  Score=53.93  Aligned_cols=87  Identities=15%  Similarity=0.092  Sum_probs=47.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+++.|+|+|+...........+..+|.++++..... .++..+...++.+..    .+.++ .+|+|+.|...     
T Consensus        67 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ilv~nK~Dl~~-----  140 (190)
T 3con_A           67 ETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPM-VLVGNKCDLPT-----  140 (190)
T ss_dssp             EEEEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCE-EEEEECTTCSC-----
T ss_pred             EEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeE-EEEEECCcCCc-----
Confidence            45789999999754322333344557888888877654 355555554444443    24555 49999998532     


Q ss_pred             CccccCCchhhHHHHHhCCc
Q 022525          213 PSFIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~  232 (295)
                        ........+++.+.++.+
T Consensus       141 --~~~~~~~~~~~~~~~~~~  158 (190)
T 3con_A          141 --RTVDTKQAHELAKSYGIP  158 (190)
T ss_dssp             --CCSCHHHHHHHHHHHTCC
T ss_pred             --ccCCHHHHHHHHHHcCCe
Confidence              111123456666666643

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.62  E-value=0.0031  Score=55.04  Aligned_cols=42  Identities=29%  Similarity=0.296  Sum_probs=36.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+.+|++++ ..|+||||+...||..+.. .+.+|++.+.|...
T Consensus       156 ~g~vi~lvG-~nGsGKTTll~~Lag~l~~-~~G~V~l~g~D~~r  197 (359)
T 2og2_A          156 KPAVIMIVG-VNGGGKTTSLGKLAHRLKN-EGTKVLMAAGDTFR  197 (359)
T ss_dssp             SSEEEEEEC-CTTSCHHHHHHHHHHHHHH-TTCCEEEECCCCSC
T ss_pred             CCeEEEEEc-CCCChHHHHHHHHHhhccc-cCCEEEEecccccc
Confidence            368999985 5999999999999999998 89999999888654

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.61  E-value=0.003  Score=53.82  Aligned_cols=42  Identities=29%  Similarity=0.296  Sum_probs=36.8

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+.++++++ ..|+||||+...||..+.. .+.+|++.+.|...
T Consensus        99 ~g~vi~lvG-~nGsGKTTll~~Lag~l~~-~~g~V~l~g~d~~r  140 (302)
T 3b9q_A           99 KPAVIMIVG-VNGGGKTTSLGKLAHRLKN-EGTKVLMAAGDTFR  140 (302)
T ss_dssp             SCEEEEEEC-CTTSCHHHHHHHHHHHHHH-TTCCEEEECCCCSC
T ss_pred             CCcEEEEEc-CCCCCHHHHHHHHHHHHHH-cCCeEEEEeecccc
Confidence            368999985 5999999999999999998 89999999888654

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=97.60  E-value=0.00035  Score=66.59  Aligned_cols=92  Identities=15%  Similarity=0.079  Sum_probs=64.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.|+|||+..+........+..+|.+|+|+++...........+..+...+.+++ +|+|+.|.....        
T Consensus        75 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~p~i-vviNKiD~~~~~--------  145 (691)
T 1dar_A           75 KDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKMDKTGAD--------  145 (691)
T ss_dssp             TTEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECTTSTTCC--------
T ss_pred             CCeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHHHHcCCCEE-EEEECCCcccCC--------
Confidence            46889999999765544455566778999999999887655666667777777788876 899999843110        


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      .....+++.+.++..... .+|
T Consensus       146 ~~~~~~~l~~~l~~~~~~~~~P  167 (691)
T 1dar_A          146 LWLVIRTMQERLGARPVVMQLP  167 (691)
T ss_dssp             HHHHHHHHHHTTCCCEEECEEE
T ss_pred             HHHHHHHHHHHhCCCccceecc
Confidence            123567777777765443 455

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.56  E-value=0.00081  Score=58.36  Aligned_cols=41  Identities=34%  Similarity=0.384  Sum_probs=36.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.+++++ +..|+||||+.-.|+..+.. .+.+|.++..|++.
T Consensus        55 g~~v~i~-G~~GaGKSTLl~~l~g~~~~-~~g~v~i~~~d~~~   95 (337)
T 2qm8_A           55 AIRVGIT-GVPGVGKSTTIDALGSLLTA-AGHKVAVLAVDPSS   95 (337)
T ss_dssp             SEEEEEE-CCTTSCHHHHHHHHHHHHHH-TTCCEEEEEECGGG
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHhhhh-CCCEEEEEEEcCcc
Confidence            5788876 88899999999999999988 89999999999864

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=97.51  E-value=0.0035  Score=49.66  Aligned_cols=67  Identities=13%  Similarity=0.159  Sum_probs=44.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+...    +.++ .+|+|+.|.
T Consensus        70 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  141 (201)
T 3oes_A           70 DEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPV-VLVGNKADL  141 (201)
T ss_dssp             -CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCE-EEEEECTTC
T ss_pred             EEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccC
Confidence            56788999999744332334455567898888887654 4566666666666543    4455 499999984

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=97.50  E-value=0.00026  Score=66.80  Aligned_cols=88  Identities=14%  Similarity=0.112  Sum_probs=70.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ++|.+-|||||+..+...-....|..+|.+|+|+++...-...+...++.+.+.+++.+ +++|++|.....        
T Consensus        65 ~~~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~~lp~i-~~INKmDr~~a~--------  135 (638)
T 3j25_A           65 ENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTI-FFINKIDQNGID--------  135 (638)
T ss_dssp             SSCBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHHTCSCE-ECCEECCSSSCC--------
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCeE-EEEeccccccCC--------
Confidence            56788999999988876667788889999999999988877788999999999999986 889999842111        


Q ss_pred             CCchhhHHHHHhCCcEE
Q 022525          218 GKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~  234 (295)
                      -....+++.+.++..++
T Consensus       136 ~~~~~~~i~~~l~~~~~  152 (638)
T 3j25_A          136 LSTVYQDIKEKLSAEIV  152 (638)
T ss_dssp             SHHHHHHHHHTTCCCCC
T ss_pred             HHHHHHHHHHHhCCCcc
Confidence            12457788888876543

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=97.43  E-value=0.0011  Score=50.53  Aligned_cols=88  Identities=11%  Similarity=0.101  Sum_probs=52.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc--CCCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK--VQVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~--~~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+.. ++..+...+..+..  .+.++ .+|+|+.|.....     
T Consensus        52 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~pi-ilv~nK~Dl~~~~-----  125 (168)
T 1z2a_A           52 EDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPT-ALVQNKIDLLDDS-----  125 (168)
T ss_dssp             EEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCE-EEEEECGGGGGGC-----
T ss_pred             EEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEECcccCccc-----
Confidence            357899999997433223334455678999998887653 45555555554433  34555 4999999853211     


Q ss_pred             cccCCchhhHHHHHhCCc
Q 022525          215 FIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~  232 (295)
                       .......+++.+.++.+
T Consensus       126 -~~~~~~~~~~~~~~~~~  142 (168)
T 1z2a_A          126 -CIKNEEAEGLAKRLKLR  142 (168)
T ss_dssp             -SSCHHHHHHHHHHHTCE
T ss_pred             -ccCHHHHHHHHHHcCCe
Confidence             11123455666666653

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=97.42  E-value=0.00065  Score=60.50  Aligned_cols=68  Identities=21%  Similarity=0.249  Sum_probs=51.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+|+|+++.......+.+.+..+...+.+.+.+++|+.|.
T Consensus        73 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~~ip~iivviNK~Dl  140 (405)
T 2c78_A           73 AKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDM  140 (405)
T ss_dssp             SSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEECccc
Confidence            56889999998654432334455667999999999877666677777777777888855689999984

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=97.42  E-value=0.0007  Score=56.36  Aligned_cols=90  Identities=16%  Similarity=0.069  Sum_probs=57.9

Q ss_pred             CCccEEEEcCCCCCCccc----------hhhhhh--ccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ----------LTTTQT--LQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~----------~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .++.+.|+|+|+..+...          +....+  ..+|.+++|+....  .........++...+.+++ +|+||.|.
T Consensus        46 ~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~--~~~~~~l~~~l~~~~~pvi-lv~NK~Dl  122 (256)
T 3iby_A           46 GEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACH--LERHLYLTSQLFELGKPVV-VALNMMDI  122 (256)
T ss_dssp             TTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGG--HHHHHHHHHHHTTSCSCEE-EEEECHHH
T ss_pred             CCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCC--chhHHHHHHHHHHcCCCEE-EEEEChhc
Confidence            345789999997544321          122222  56899999988776  4455566777777777765 99999984


Q ss_pred             CCCCCCCCccccCCchhhHHHHHhCCcEEEee
Q 022525          206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEI  237 (295)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I  237 (295)
                      ....       -.....+.+.+.+|.+++.+-
T Consensus       123 ~~~~-------~~~~~~~~l~~~lg~~vi~~S  147 (256)
T 3iby_A          123 AEHR-------GISIDTEKLESLLGCSVIPIQ  147 (256)
T ss_dssp             HHHT-------TCEECHHHHHHHHCSCEEECB
T ss_pred             CCcC-------CcHHHHHHHHHHcCCCEEEEE
Confidence            3111       011236678888898877533

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=97.41  E-value=0.014  Score=45.28  Aligned_cols=87  Identities=14%  Similarity=0.084  Sum_probs=50.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      .+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+..    .+.++ .+|+|+.|...      
T Consensus        51 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-i~v~nK~Dl~~------  123 (189)
T 4dsu_A           51 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPM-VLVGNKCDLPS------  123 (189)
T ss_dssp             EEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCE-EEEEECTTSSS------
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEEECccCcc------
Confidence            4668889999754433344444567888888877654 355555555555443    24555 49999998531      


Q ss_pred             ccccCCchhhHHHHHhCCcE
Q 022525          214 SFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~~  233 (295)
                       ........+++.+.++.++
T Consensus       124 -~~~~~~~~~~~~~~~~~~~  142 (189)
T 4dsu_A          124 -RTVDTKQAQDLARSYGIPF  142 (189)
T ss_dssp             -CSSCHHHHHHHHHHHTCCE
T ss_pred             -cccCHHHHHHHHHHcCCeE
Confidence             1112234666666666543

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.38  E-value=0.00058  Score=59.91  Aligned_cols=40  Identities=18%  Similarity=0.238  Sum_probs=34.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.|+ +..|+||||++.+++..+++ .|.+|++||++..
T Consensus        74 G~li~I~-G~pGsGKTtlal~la~~~~~-~g~~vlyi~~E~s  113 (366)
T 1xp8_A           74 GRITEIY-GPESGGKTTLALAIVAQAQK-AGGTCAFIDAEHA  113 (366)
T ss_dssp             TSEEEEE-ESTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCC
T ss_pred             CcEEEEE-cCCCCChHHHHHHHHHHHHH-CCCeEEEEECCCC
Confidence            4666664 67889999999999999999 9999999999854

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.37  E-value=0.0015  Score=52.14  Aligned_cols=66  Identities=17%  Similarity=0.142  Sum_probs=42.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +.+|+|+.|.
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl  137 (213)
T 3cph_A           68 KVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQ-LLLVGNKSDM  137 (213)
T ss_dssp             EEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSE-EEEEEECTTC
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCC
Confidence            4779999999643322333445667899999988764 3455555555555432   344 4599999985

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=97.36  E-value=0.0041  Score=48.68  Aligned_cols=67  Identities=12%  Similarity=0.014  Sum_probs=42.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc----hHHHHHHHHHHHhc-----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV----ALIDARKGITMFSK-----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~----s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|......    .........+++..     .+.++ .+|.|+.|.
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~pi-ilv~NK~Dl  147 (198)
T 3t1o_A           72 FKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPI-VIQVNKRDL  147 (198)
T ss_dssp             CEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCE-EEEEECTTS
T ss_pred             CceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCE-EEEEEchhc
Confidence            457799999997544334444556689999999988743    22222333344433     24444 599999984

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.36  E-value=0.00036  Score=64.58  Aligned_cols=92  Identities=12%  Similarity=0.040  Sum_probs=75.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ++|.+=|||||+..+...-....|..+|.+|+|+.+...-...+...++.+.+.++|.+ +++|++|....       . 
T Consensus        98 ~~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~~~lp~i-~fINK~Dr~~a-------d-  168 (548)
T 3vqt_A           98 RDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRMRATPVM-TFVNKMDREAL-------H-  168 (548)
T ss_dssp             TTEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEE-EEEECTTSCCC-------C-
T ss_pred             CCEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHHHhCCceE-EEEecccchhc-------c-
Confidence            67889999999988776667788889999999999999989999999999999999986 99999994211       1 


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      -...++++.+.++..+.. .+|
T Consensus       169 ~~~~~~~i~~~l~~~~~p~~~P  190 (548)
T 3vqt_A          169 PLDVMADIEQHLQIECAPMTWP  190 (548)
T ss_dssp             HHHHHHHHHHHHTSEEEESEEE
T ss_pred             hhHhhhhhhhhcCCceEeEEee
Confidence            125588999999987765 555

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=97.35  E-value=0.0027  Score=49.96  Aligned_cols=64  Identities=16%  Similarity=0.059  Sum_probs=43.6

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc-CCCCeeeEEecccc
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK-VQVPILGLVENMSC  204 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~-~~~~~~~~ViN~~~  204 (295)
                      +.+.|+|+|+...........+..+|.+++|...... ++..+...+..+.. .+ ..+.+|+|+.|
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~-~piilv~NK~D  158 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN-YIIILVANKID  158 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC-CEEEEEEECTT
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC-CcEEEEEECCC
Confidence            8899999996433223344555688999999887654 45555555555554 34 45569999998

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=97.34  E-value=0.0023  Score=48.80  Aligned_cols=67  Identities=15%  Similarity=0.132  Sum_probs=42.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...... ++..+...+..+...   +.++ .+|+|+.+.
T Consensus        50 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ilv~nK~Dl  120 (170)
T 1g16_A           50 KKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQL-LLVGNKSDM  120 (170)
T ss_dssp             CEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE-EEEEECTTC
T ss_pred             EEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcE-EEEEECccC
Confidence            356799999996433223334455678988888886543 555555555555432   4444 599999985

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=97.33  E-value=0.007  Score=47.37  Aligned_cols=88  Identities=13%  Similarity=0.149  Sum_probs=52.9

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCCc
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      .+.+.|+|+|+...........+..+|.++++..... .++..+...+..+...   +.++ .+|.|+.|.....     
T Consensus        64 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ilv~nK~Dl~~~~-----  137 (196)
T 3tkl_A           64 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNK-LLVGNKCDLTTKK-----  137 (196)
T ss_dssp             EEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE-EEEEECTTCTTTC-----
T ss_pred             EEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCE-EEEEECccccccc-----
Confidence            4679999999754332334455667899999887655 3455555555555432   4444 5899999853211     


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                       .......+++.+.++.++
T Consensus       138 -~~~~~~~~~~~~~~~~~~  155 (196)
T 3tkl_A          138 -VVDYTTAKEFADSLGIPF  155 (196)
T ss_dssp             -CSCHHHHHHHHHHTTCCE
T ss_pred             -ccCHHHHHHHHHHcCCcE
Confidence             111234566667666543

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=97.28  E-value=0.01  Score=45.86  Aligned_cols=116  Identities=12%  Similarity=0.114  Sum_probs=62.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+...+..+.+    .+.++ .+|.|+.|....    
T Consensus        52 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~~~----  126 (181)
T 3t5g_A           52 QEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPI-MLVGNKKDLHME----  126 (181)
T ss_dssp             EEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCE-EEEEECTTCTTT----
T ss_pred             EEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccchhc----
Confidence            34778999999744322333344556898888877654 455555555544432    24555 499999985311    


Q ss_pred             CccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHHHHHHHHH
Q 022525          213 PSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQELAK  282 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~~~~~  282 (295)
                        ........+++.+.++.+                    +++...  .....+.++...|...+.....
T Consensus       127 --~~~~~~~~~~~~~~~~~~--------------------~~~~Sa--~~~~~v~~l~~~l~~~~~~~~~  172 (181)
T 3t5g_A          127 --RVISYEEGKALAESWNAA--------------------FLESSA--KENQTAVDVFRRIILEAEKMDG  172 (181)
T ss_dssp             --CCSCHHHHHHHHHHTTCE--------------------EEECCT--TSHHHHHHHHHHHHHHHHTC--
T ss_pred             --ceecHHHHHHHHHHhCCc--------------------EEEEec--CCCCCHHHHHHHHHHHHHHhcC
Confidence              111223455566655543                    233222  2234566666666666655443

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=97.26  E-value=0.005  Score=47.52  Aligned_cols=89  Identities=16%  Similarity=0.108  Sum_probs=52.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC--CCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ--VPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+...+..+....  ...+.+|+|+.|.....     
T Consensus        59 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~-----  133 (181)
T 2efe_B           59 ATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR-----  133 (181)
T ss_dssp             EEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC-----
T ss_pred             EEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccc-----
Confidence            35779999999754332333445567899999888754 35566666666655432  22345999999853211     


Q ss_pred             cccCCchhhHHHHHhCCc
Q 022525          215 FIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~  232 (295)
                       .......+++.+..+.+
T Consensus       134 -~~~~~~~~~~~~~~~~~  150 (181)
T 2efe_B          134 -KVTAEDAQTYAQENGLF  150 (181)
T ss_dssp             -CSCHHHHHHHHHHTTCE
T ss_pred             -cCCHHHHHHHHHHcCCE
Confidence             11123455566655543

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=97.26  E-value=0.0025  Score=49.49  Aligned_cols=67  Identities=18%  Similarity=0.113  Sum_probs=42.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+..    .+.++ .+|+|+.|.
T Consensus        64 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  135 (187)
T 2a9k_A           64 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF-LLVGNKSDL  135 (187)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            34689999999754433333444567899888887664 344555444444432    24555 499999985

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=97.25  E-value=0.00084  Score=59.64  Aligned_cols=68  Identities=16%  Similarity=0.152  Sum_probs=50.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+|+|+.+.......+...+..+...+.+.+.+++|+.|.
T Consensus        64 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~vp~iivviNK~Dl  131 (397)
T 1d2e_A           64 AARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADA  131 (397)
T ss_dssp             SSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCeEEEEEECccc
Confidence            56889999999643322223444567999999999887666667777777777888865689999985

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=97.24  E-value=0.0023  Score=48.57  Aligned_cols=67  Identities=18%  Similarity=0.113  Sum_probs=41.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+..    .+.++ .+|+|+.|.
T Consensus        50 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  121 (168)
T 1u8z_A           50 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF-LLVGNKSDL  121 (168)
T ss_dssp             EEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEEECccc
Confidence            34689999999754432333444557898888887664 345555554444433    24555 499999985

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=97.23  E-value=0.0038  Score=49.06  Aligned_cols=67  Identities=21%  Similarity=0.168  Sum_probs=45.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC-----------CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV-----------QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~-----------~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+|+|...... ++..+...+..+.+.           +.++ .+|.|+.|.
T Consensus        61 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~pi-ilv~NK~Dl  139 (199)
T 4bas_A           61 GRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPF-LFFANKMDA  139 (199)
T ss_dssp             TTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCE-EEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCE-EEEEECcCC
Confidence            567899999996543323333445678999998887654 577776666655443           5555 499999984

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=97.20  E-value=0.0014  Score=50.61  Aligned_cols=67  Identities=15%  Similarity=0.160  Sum_probs=44.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +...+.|+|+|+...........+..+|.++++...+..........+..+...+.+++ +|+|+.|.
T Consensus        53 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p~i-lv~nK~Dl  119 (178)
T 2lkc_A           53 NDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVPII-VAINKMDK  119 (178)
T ss_dssp             TTEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGGGSCCEE-EEEETTTS
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHhCCCCEE-EEEECccC
Confidence            34567899999644322233344556888999987766555555666666666666754 99999984

>2g0t_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.67A {Thermotoga maritima} SCOP: c.37.1.10

Probab=97.17  E-value=0.0059  Score=52.86  Aligned_cols=137  Identities=20%  Similarity=0.215  Sum_probs=82.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      ..++|.+++.--++||||++..|...+.+ +|.++..+-....+    .+.+.+  .++.       .....        
T Consensus       168 ~~~ri~v~GTDt~vGKt~t~~~L~~~l~~-~G~~v~~v~tgqtg----~li~~~--~gv~-------~D~~~--------  225 (350)
T 2g0t_A          168 KIKVVGVFGTDCVVGKRTTAVQLWERALE-KGIKAGFLATGQTG----ILIGAD--AGYV-------IDAVP--------  225 (350)
T ss_dssp             CSEEEEEEESSSSSSHHHHHHHHHHHHHH-TTCCEEEEECSHHH----HHTTCS--EECC-------GGGSB--------
T ss_pred             cceEEEEecCCCCccCccHHHHHHHHHHh-cCCeEEEEccCcee----eeeccC--CCCC-------CCcee--------
Confidence            36899999999999999999999999999 99999886322111    111100  0000       00000        


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhc-cCCCccEEEEcCCCCCCccchh---hhhh--ccCceEEEeeCCC---------
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREV-DWGNLDILVIDMPPGTGDAQLT---TTQT--LQLSGALIVSTPQ---------  174 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l-~~~~yD~iiiD~~~~~~~~~~~---~~~l--~~ad~viiv~~~~---------  174 (295)
                                 ..........++... + ++||++|+..++++......   ...+  ...|.+|+.-.|.         
T Consensus       226 -----------~~~~ag~~e~~i~~~~~-~~~D~ivVEGqGgl~~P~~~~v~~~ll~g~~p~~vIl~h~~~r~~~~~~~~  293 (350)
T 2g0t_A          226 -----------ADFVSGVVEKAVLKLEK-TGKEIVFVEGQGALRHPAYGQVTLGLLYGSNPDVVFLVHDPSRDHFESFPE  293 (350)
T ss_dssp             -----------GGGHHHHHHHHHHHHHH-TTCSEEEEECCSCTTCTTTHHHHHHHHHHHCCSEEEEECCTTCSSCTTCTT
T ss_pred             -----------cchhhHHHHhhHHHhhh-cCCCEEEEccCeeccccCchHHHHHHHcCCCCCEEEEEeCCCCccccCCCc
Confidence                       011112222333333 4 79999999999888754322   1111  2357777755443         


Q ss_pred             --c-chHHHHHHHHHHHhcCCCCeeeEE-ecc
Q 022525          175 --D-VALIDARKGITMFSKVQVPILGLV-ENM  202 (295)
Q Consensus       175 --~-~s~~~~~~~~~~l~~~~~~~~~~V-iN~  202 (295)
                        . .++.....+++.+.  +.+++|++ +|.
T Consensus       294 ~~~~~~i~~~i~~ie~l~--~~~V~gi~~lN~  323 (350)
T 2g0t_A          294 IPKKPDFEEERRLIETLS--NAKVIGGVSLNG  323 (350)
T ss_dssp             SSCCCCHHHHHHHHHHSS--SCEEEEEECSSC
T ss_pred             ccCCcCHHHHHHHHHHhc--CCcEEEEEEcCc
Confidence              1 35566666666654  67889999 895

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=97.17  E-value=0.0057  Score=48.52  Aligned_cols=68  Identities=15%  Similarity=0.082  Sum_probs=44.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +.+|+|+.|..
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~  126 (206)
T 2bcg_Y           55 KTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVL-KLLVGNKCDLK  126 (206)
T ss_dssp             EEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECTTCT
T ss_pred             EEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCCc
Confidence            34789999999754332334455667899999888755 3566666655555432   334 45999999853

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=97.16  E-value=0.0019  Score=52.20  Aligned_cols=39  Identities=23%  Similarity=0.230  Sum_probs=32.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ...|+++ +.+|+||||+..+|+..+.. . .++..|+.|++
T Consensus        38 ~~~i~iv-G~~gvGKTtl~~~l~~~~~~-~-~~~~~i~~d~~   76 (226)
T 2hf9_A           38 VVAFDFM-GAIGSGKTLLIEKLIDNLKD-K-YKIACIAGDVI   76 (226)
T ss_dssp             CEEEEEE-ESTTSSHHHHHHHHHHHHTT-T-CCEEEEEEETT
T ss_pred             CeEEEEE-cCCCCCHHHHHHHHHHHhcc-C-CeEEEEECCCC
Confidence            4667776 55999999999999988766 4 78999999875

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=97.16  E-value=0.003  Score=48.23  Aligned_cols=67  Identities=12%  Similarity=0.047  Sum_probs=42.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc-----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK-----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+.. ++..+...+..+.+     .+.++ .+|+|+.|.
T Consensus        49 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pi-i~v~nK~Dl  121 (172)
T 2erx_A           49 SICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPI-MLVGNKCDE  121 (172)
T ss_dssp             EEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCE-EEEEEcccc
Confidence            346799999997554333344445678999888876543 45555555544443     24555 599999985

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=97.15  E-value=0.00095  Score=56.96  Aligned_cols=67  Identities=19%  Similarity=0.175  Sum_probs=42.9

Q ss_pred             CCccEEEEcCCCCCCc--------cchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGD--------AQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~--------~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.++|+|||+-...        .......+..+|.+++|.+.+..--......++.+.+.  +.+.+ +|+|+.|.
T Consensus        53 ~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p~i-lV~NK~Dl  129 (301)
T 1wf3_A           53 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPIL-LVGNKLDA  129 (301)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEE-EEEECGGG
T ss_pred             CCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCCEE-EEEECccc
Confidence            4677999999964331        11233456679999999887653222234455666655  55654 99999984

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=97.12  E-value=0.00097  Score=52.85  Aligned_cols=67  Identities=16%  Similarity=0.174  Sum_probs=42.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+|+|..... .++..+...++.+..   .+.++ .+|+|+.|.
T Consensus        75 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ilv~NK~Dl  145 (199)
T 2p5s_A           75 ERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPI-MLVGNKADI  145 (199)
T ss_dssp             EEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCE-EEEEECccc
Confidence            34678999999754433333444567899999988654 455555555555543   24555 499999984

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=97.11  E-value=0.0043  Score=48.62  Aligned_cols=66  Identities=15%  Similarity=0.094  Sum_probs=43.0

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.++ .+|+|+.|.
T Consensus        69 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~pi-ilv~nK~Dl  138 (191)
T 2a5j_A           69 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVI-MLIGNKSDL  138 (191)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE-EEEEECTTC
T ss_pred             EEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCE-EEEEECccc
Confidence            4678999999643322333445667899998888654 4556556555555432   4444 599999985

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=97.11  E-value=0.0074  Score=45.62  Aligned_cols=67  Identities=15%  Similarity=0.104  Sum_probs=41.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+...+..+.+    .+.++ .+|+|+.|.
T Consensus        49 ~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  120 (167)
T 1kao_A           49 SPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPV-ILVGNKVDL  120 (167)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECCcc
Confidence            34668999999754432333344556888888877654 355555555444432    34555 599999985

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=97.11  E-value=0.0032  Score=49.53  Aligned_cols=67  Identities=10%  Similarity=0.049  Sum_probs=42.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc-----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK-----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+..     .+.++ .+|+|+.|.
T Consensus        54 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~pi-ilv~nK~Dl  126 (199)
T 2gf0_A           54 SVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPV-MLVGNKCDE  126 (199)
T ss_dssp             EEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCE-EEEEECTTC
T ss_pred             EEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccC
Confidence            45679999999644332333444567899888887654 345555544444433     24454 599999985

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=97.10  E-value=0.0055  Score=46.70  Aligned_cols=89  Identities=13%  Similarity=0.093  Sum_probs=48.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+...++.+..   .+.++ .+|.|+.+.....    
T Consensus        53 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~----  127 (170)
T 1z08_A           53 KRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICL-CIVGNKIDLEKER----  127 (170)
T ss_dssp             CEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEE-EEEEECGGGGGGC----
T ss_pred             EEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeE-EEEEECccccccc----
Confidence            45678999999643322233333457898888887654 355555555554443   33444 5999999853211    


Q ss_pred             ccccCCchhhHHHHHhCCcE
Q 022525          214 SFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~~  233 (295)
                        .......+++.+..+.++
T Consensus       128 --~~~~~~~~~~~~~~~~~~  145 (170)
T 1z08_A          128 --HVSIQEAESYAESVGAKH  145 (170)
T ss_dssp             --CSCHHHHHHHHHHTTCEE
T ss_pred             --ccCHHHHHHHHHHcCCeE
Confidence              111234556666666443

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=97.09  E-value=0.0071  Score=48.75  Aligned_cols=66  Identities=18%  Similarity=0.190  Sum_probs=42.3

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+|+|..... .++..+...+..+...   +.+ +.+|+|+.|.
T Consensus        61 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~p-iilv~nK~Dl  130 (223)
T 3cpj_B           61 RIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVA-VGLIGNKSDL  130 (223)
T ss_dssp             EEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CE-EEEEECCGGG
T ss_pred             EEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECccc
Confidence            4778999999754332333445567898998887654 3566666555555442   344 4589999985

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=97.09  E-value=0.0021  Score=57.71  Aligned_cols=69  Identities=16%  Similarity=0.112  Sum_probs=50.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH-------HHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI-------DARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.|+|||+...........+..+|.+|+|++....+++       .+.+.+..+...+.+.+.+++|+.|..
T Consensus        82 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~  157 (435)
T 1jny_A           82 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLT  157 (435)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGS
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCC
Confidence            568899999997655333345556688999999998886555       445555566667776556999999953

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=97.06  E-value=0.0044  Score=48.47  Aligned_cols=68  Identities=12%  Similarity=0.025  Sum_probs=44.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...++.+...   ....+.+|+|+.|.
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl  133 (195)
T 1x3s_A           62 NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK  133 (195)
T ss_dssp             EEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTS
T ss_pred             eEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcC
Confidence            45779999999754322334455667899999887654 3555666666666542   12344599999985

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=97.05  E-value=0.0062  Score=46.76  Aligned_cols=67  Identities=13%  Similarity=0.049  Sum_probs=43.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...... ++..+...+..+..   .+.+ +.+|+|+.|.
T Consensus        62 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  132 (179)
T 1z0f_A           62 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV-IILIGNKADL  132 (179)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTC
T ss_pred             eEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECccc
Confidence            356799999996443223344556678999988887643 45555555444443   3444 4599999985

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=97.05  E-value=0.0059  Score=48.26  Aligned_cols=67  Identities=18%  Similarity=0.113  Sum_probs=42.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+..    .+.++ .+|+|+.|.
T Consensus        60 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  131 (206)
T 2bov_A           60 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF-LLVGNKSDL  131 (206)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCE-EEEEECTTC
T ss_pred             EEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEeccCc
Confidence            34679999999754433333444557898888877654 455555555554443    24555 499999985

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=97.04  E-value=0.002  Score=61.13  Aligned_cols=90  Identities=10%  Similarity=0.085  Sum_probs=61.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.|+|||+..+........+..+|.+++|..+.......+...+..+...+.+++ +|+|+.+.. .        .
T Consensus        72 ~~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~~~ip~i-lv~NKiD~~-~--------~  141 (665)
T 2dy1_A           72 RGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRM-VVVTKLDKG-G--------D  141 (665)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECGGGC-C--------C
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhHHHHHHHHHHccCCEE-EEecCCchh-h--------h
Confidence            35778999999655433344556678999999998876655666777777777788876 889999843 1        1


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      .....+++.+.++ .+.. .+|
T Consensus       142 ~~~~~~~l~~~l~-~~~~~~~P  162 (665)
T 2dy1_A          142 YYALLEDLRSTLG-PILPIDLP  162 (665)
T ss_dssp             HHHHHHHHHHHHC-SEEECEEE
T ss_pred             HHHHHHHHHHHhC-CcceEEee
Confidence            1245677777777 4332 444

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.00  E-value=0.0031  Score=51.21  Aligned_cols=36  Identities=17%  Similarity=0.106  Sum_probs=31.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +. +.++.+.-|+||||.+..++..++. +|.+|+++-
T Consensus        12 G~-i~litG~mGsGKTT~ll~~~~r~~~-~g~kVli~~   47 (223)
T 2b8t_A           12 GW-IEFITGPMFAGKTAELIRRLHRLEY-ADVKYLVFK   47 (223)
T ss_dssp             CE-EEEEECSTTSCHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             cE-EEEEECCCCCcHHHHHHHHHHHHHh-cCCEEEEEE
Confidence            44 4455688999999999999999999 999999994

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.99  E-value=0.00091  Score=58.43  Aligned_cols=40  Identities=18%  Similarity=0.274  Sum_probs=34.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.|+ +++|+||||++.+++..+++ .|.+|++||++..
T Consensus        63 G~ii~I~-G~pGsGKTtLal~la~~~~~-~g~~vlyid~E~s  102 (356)
T 1u94_A           63 GRIVEIY-GPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHA  102 (356)
T ss_dssp             TSEEEEE-CSTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCC
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCC
Confidence            4555554 79999999999999999999 9999999999743

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.99  E-value=0.0012  Score=51.79  Aligned_cols=39  Identities=36%  Similarity=0.389  Sum_probs=34.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|.+. +..|+||||++..|+..+.. .|.+|.++|.|.
T Consensus        13 ~~~i~l~-G~~GsGKsT~~~~L~~~l~~-~~~~~~~~~~d~   51 (186)
T 2yvu_A           13 GIVVWLT-GLPGSGKTTIATRLADLLQK-EGYRVEVLDGDW   51 (186)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHH
T ss_pred             CcEEEEE-cCCCCCHHHHHHHHHHHHHh-cCCeEEEeeHHH
Confidence            5666665 88999999999999999999 999999998774

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=96.98  E-value=0.005  Score=51.66  Aligned_cols=88  Identities=13%  Similarity=0.072  Sum_probs=55.3

Q ss_pred             CCccEEEEcCCCCCCccch----------h--hhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQL----------T--TTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~----------~--~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+..+....          .  ......+|.+++|+....  .........++...+.+++ +|+||.|.
T Consensus        48 ~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~--~~~~~~~~~~l~~~~~p~i-vv~NK~Dl  124 (274)
T 3i8s_A           48 TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASN--LERNLYLTLQLLELGIPCI-VALNMLDI  124 (274)
T ss_dssp             SSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGG--HHHHHHHHHHHHHHTCCEE-EEEECHHH
T ss_pred             CCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCC--hHHHHHHHHHHHhcCCCEE-EEEECccc
Confidence            3467899999975442210          0  111247899999988776  4445556666666777775 99999984


Q ss_pred             CCCCCCCCccccCCchhhHHHHHhCCcEEE
Q 022525          206 ICPHCSEPSFIFGKGGTHRTAAEMGLKVIG  235 (295)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  235 (295)
                      ....      . .....+.+.+.+|.+++.
T Consensus       125 ~~~~------~-~~~~~~~l~~~lg~~~i~  147 (274)
T 3i8s_A          125 AEKQ------N-IRIEIDALSARLGCPVIP  147 (274)
T ss_dssp             HHHT------T-EEECHHHHHHHHTSCEEE
T ss_pred             hhhh------h-HHHHHHHHHHhcCCCEEE
Confidence            2111      0 012367778888887764

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=96.98  E-value=0.013  Score=45.28  Aligned_cols=90  Identities=14%  Similarity=0.097  Sum_probs=52.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+.|+|+|+...........+..+|.++++...... ++..+...+..+.+    .+.+++ +|.|+.|....    
T Consensus        64 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i-lv~nK~Dl~~~----  138 (183)
T 3kkq_A           64 QWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMI-LVANKVDLMHL----  138 (183)
T ss_dssp             EEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEE-EEEECTTCSTT----
T ss_pred             cEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEE-EEEECCCchhc----
Confidence            345577899997443223334445678999888876653 45555554444432    455554 99999985321    


Q ss_pred             CccccCCchhhHHHHHhCCcEE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                        ........+++.+.++.+++
T Consensus       139 --~~v~~~~~~~~~~~~~~~~~  158 (183)
T 3kkq_A          139 --RKVTRDQGKEMATKYNIPYI  158 (183)
T ss_dssp             --CCSCHHHHHHHHHHHTCCEE
T ss_pred             --cCcCHHHHHHHHHHhCCeEE
Confidence              11222446667777765433

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=96.97  E-value=0.00079  Score=59.91  Aligned_cols=67  Identities=18%  Similarity=0.134  Sum_probs=50.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|||+...........+..+|.+++++..+... ...+...+..+...+.+.+.+|+|+.|.
T Consensus        74 ~~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl  141 (403)
T 3sjy_A           74 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDV  141 (403)
T ss_dssp             EEEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGG
T ss_pred             cceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccc
Confidence            377999999975543334455566899999999888764 7777777777777776556699999984

>1s1m_A CTP synthase; CTP synthetase, UTP:ammonia ligase (ADP-forming), cytidine 5 triphosphate synthase, ammonia lyase; 2.30A {Escherichia coli} SCOP: c.23.16.1 c.37.1.10 PDB: 2ad5_A*

Probab=96.96  E-value=0.0016  Score=59.74  Aligned_cols=168  Identities=16%  Similarity=0.095  Sum_probs=90.5

Q ss_pred             CeEEEEe-eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC------CCccc---ccccCCCccccccCcccccccC
Q 022525           31 KDVIAVA-SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG------PSVPM---MMKIDQKPEVTKDMKMVPIENY  100 (295)
Q Consensus        31 ~~vI~i~-s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~------~~~~~---~~g~~~~~~~~~~~~~~~~~~~  100 (295)
                      +|-|.|+ +.-.|+||+++++.|+..|++ +|.+|..+-.||--      .+...   .|-.+.... .+...-.+....
T Consensus         3 ~~~i~v~gg~~s~~gk~~~~~~l~~~l~~-~g~~v~~~k~~py~n~d~~~ms~~~hge~~vt~dg~e-~~~~~~~~~~~~   80 (545)
T 1s1m_A            3 TNYIFVTGGVVSSLGKGIAAASLAAILEA-RGLNVTIMKLDPYINVDPGTMSPIQHGEVFVTEDGAE-TDLDLGHYERFI   80 (545)
T ss_dssp             CEEEEEEECSSSCSCHHHHHHHHHHHHHT-TTCCEEEEEEECCSCSCGGGSCTTTSCCCEECTTSCE-ECTHHHHHHHHC
T ss_pred             ceEEEEeCCcccCcchHHHHHHHHHHHHh-CCceeeeeeccccccCCCCccCcccCCCeEECCCCCe-ehhhhccceeee
Confidence            5888888 899999999999999999999 99999999997432      22110   000000000 000000011111


Q ss_pred             Cceeecc-----cc----cc----CCCCC--CccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc---
Q 022525          101 GVKCMSM-----GF----LV----PSSSP--VVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL---  162 (295)
Q Consensus       101 ~~~~~~~-----~~----~~----~~~~~--~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~---  162 (295)
                      ++.+-+.     |.    ..    ....-  ...--....+.+++.+..+. ..||+||+..++..++- .++..+.   
T Consensus        81 ~~~l~~~~~~~~g~~~~~~~~~~~~~~y~~~~~~~~~~~~~~i~~~~~~~~-~~~d~~i~e~~gt~~di-~~~~~~~~~~  158 (545)
T 1s1m_A           81 RTKMSRRNNFTTGRIYSDVLRKERRGDYLGATVQVIPHITNAIKERVLEGG-EGHDVVLVEIGGTVGDI-ESLPFLEAIR  158 (545)
T ss_dssp             SSCCCGGGEEEHHHHHHHHHHHHHTTTTTTCCCCHHHHHHHHHHHHHHHHH-TTCSEEEEEECSCTTSS-TTHHHHHHHH
T ss_pred             ceeecCCCCeeccEEeeehhhhccccccccCceeehhHHHHHHHHHHHHHh-ccCCEEEEECCCChhhh-hChHHHHHHH
Confidence            2111111     10    00    00000  00001123455677788888 89999999999877642 2111111   


Q ss_pred             ------cC------ceEEEeeC--CCcchHHHHHHHHHHHhcCCCCeeeEEecc
Q 022525          163 ------QL------SGALIVST--PQDVALIDARKGITMFSKVQVPILGLVENM  202 (295)
Q Consensus       163 ------~a------d~viiv~~--~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~  202 (295)
                            ..      ...++|..  ....--..+..-.+.++..++.+-++|+--
T Consensus       159 q~~~~~~~~~~~~~h~~~~p~~~~~ge~ktkptq~sv~~l~s~gi~pd~lv~R~  212 (545)
T 1s1m_A          159 QMAVEIGREHTLFMHLTLVPYMAASGEVKTKPTQHSVKELLSIGIQPDILICRS  212 (545)
T ss_dssp             HHHHHHCTTSEEEEEEEECCEETTTTEECCHHHHHHHHHHHTTTCCCSEEEEEE
T ss_pred             HHhHhhCcCcEEEEEEeCcccccCCCCcCCCCCcCCHHHHhCCCCccCEEEEeC
Confidence                  11      12233322  233445667778888888888776666553

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=96.95  E-value=0.0071  Score=45.83  Aligned_cols=67  Identities=13%  Similarity=0.056  Sum_probs=42.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|+|+...........+..+|.++++...+. .++..+...++.+.+    .+.++ .+|+|+.|.
T Consensus        49 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  120 (167)
T 1c1y_A           49 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPM-ILVGNKCDL  120 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCE-EEEEECTTC
T ss_pred             EEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcE-EEEEECccc
Confidence            45779999999754332333444557898888886654 455555555544433    35555 499999985

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.95  E-value=0.0014  Score=51.48  Aligned_cols=88  Identities=11%  Similarity=0.054  Sum_probs=53.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc---CCCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK---VQVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+.|+|+|+...........+..+|.+++|.... ..++..+...++.+..   .+.+ +.+|.|+.|....     
T Consensus        70 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~-----  143 (191)
T 3dz8_A           70 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQ-VILVGNKCDMEEE-----  143 (191)
T ss_dssp             TTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGG-----
T ss_pred             EEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCCccc-----
Confidence            4577999999863322233344566789998888776 3456666666666654   3444 4599999984211     


Q ss_pred             ccccCCchhhHHHHHhCCc
Q 022525          214 SFIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~  232 (295)
                       ........+.+.+.++.+
T Consensus       144 -~~~~~~~~~~~~~~~~~~  161 (191)
T 3dz8_A          144 -RVVPTEKGQLLAEQLGFD  161 (191)
T ss_dssp             -CCSCHHHHHHHHHHHTCE
T ss_pred             -cccCHHHHHHHHHHcCCe
Confidence             111223455666666654

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=96.94  E-value=0.0061  Score=50.95  Aligned_cols=88  Identities=15%  Similarity=0.085  Sum_probs=53.4

Q ss_pred             CCccEEEEcCCCCCCccc------hhhhhh--ccCceEEEeeCCCcchHHHHHHHHHHHhcCC-CCeeeEEeccccCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQ------LTTTQT--LQLSGALIVSTPQDVALIDARKGITMFSKVQ-VPILGLVENMSCFICP  208 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~------~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~-~~~~~~ViN~~~~~~~  208 (295)
                      ..+.+.|+|+|+..+...      .....+  ..+|.++++......  .........+...+ .+++ +|+||.+....
T Consensus        48 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~--~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~~~  124 (271)
T 3k53_A           48 REKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCL--MRNLFLTLELFEMEVKNII-LVLNKFDLLKK  124 (271)
T ss_dssp             TTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGH--HHHHHHHHHHHHTTCCSEE-EEEECHHHHHH
T ss_pred             CCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcc--hhhHHHHHHHHhcCCCCEE-EEEEChhcCcc
Confidence            456689999997554222      111111  358999999877663  34444444555566 6654 99999984211


Q ss_pred             CCCCCccccCCchhhHHHHHhCCcEEE
Q 022525          209 HCSEPSFIFGKGGTHRTAAEMGLKVIG  235 (295)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~g~~~~~  235 (295)
                      .      . .......+.+.+|.+++.
T Consensus       125 ~------~-~~~~~~~l~~~lg~~~~~  144 (271)
T 3k53_A          125 K------G-AKIDIKKMRKELGVPVIP  144 (271)
T ss_dssp             H------T-CCCCHHHHHHHHSSCEEE
T ss_pred             c------c-cHHHHHHHHHHcCCcEEE
Confidence            1      0 112377888889988775

>1vco_A CTP synthetase; tetramer, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; HET: GLN; 2.15A {Thermus thermophilus} SCOP: c.23.16.1 c.37.1.10 PDB: 1vcn_A 1vcm_A

Probab=96.90  E-value=0.021  Score=52.38  Aligned_cols=41  Identities=15%  Similarity=0.209  Sum_probs=38.0

Q ss_pred             CCeEEEEe-eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVA-SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~-s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      |+|.|.|+ +.-.|+||+.+++.|+..|++ +|.+|..+-.||
T Consensus        11 ~~~~i~v~gg~~s~~gk~~~~~~~~~~l~~-~g~~v~~~k~~p   52 (550)
T 1vco_A           11 PRKYVFITGGVVSSLGKGILTSSLGALLRA-RGYRVTAIKIDP   52 (550)
T ss_dssp             CCEEEEEEECSSSCSCHHHHHHHHHHHHHT-TTCCEEEEEEEC
T ss_pred             ceeEEEEeCCcccCcchHHHHHHHHHHHHh-CCceeeEeeccc
Confidence            46889999 889999999999999999999 999999999975

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=96.90  E-value=0.013  Score=45.99  Aligned_cols=67  Identities=16%  Similarity=0.207  Sum_probs=43.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      +++.+.++|+|+...........+..+|.++++.+.... ++......+..+.+    .+.++ .+|.|+.|.
T Consensus        65 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~NK~Dl  136 (190)
T 1m2o_B           65 GNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPF-VILGNKIDA  136 (190)
T ss_dssp             TTEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCE-EEEEECTTS
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCE-EEEEECCCC
Confidence            347789999996433222223345578999888887654 67777666665543    34454 599999984

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=96.89  E-value=0.0026  Score=58.05  Aligned_cols=67  Identities=16%  Similarity=0.103  Sum_probs=47.3

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      .+.+.|+|||+...........+..+|.+++++..+......+...+..+...+.|+ .+++|+.|..
T Consensus        50 ~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~~~vPi-IVviNKiDl~  116 (501)
T 1zo1_I           50 NGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQVPV-VVAVNKIDKP  116 (501)
T ss_dssp             SSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHHTTCCE-EEEEECSSSS
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHHHHHHhcCceE-EEEEEecccc
Confidence            456789999976543333344456789999998877655555566666777778885 4999999964

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.88  E-value=0.01  Score=46.65  Aligned_cols=66  Identities=12%  Similarity=0.070  Sum_probs=43.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+... .......+..+|.++++...+. .++..+...+..+..    .+.++ .+|.|+.|.
T Consensus        74 ~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~NK~Dl  144 (196)
T 2atv_A           74 EVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTL-ILVGNKADL  144 (196)
T ss_dssp             EEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcE-EEEEECccc
Confidence            457789999996544 2334455567899999888764 455555554444433    35555 499999985

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=96.88  E-value=0.0087  Score=47.41  Aligned_cols=66  Identities=14%  Similarity=0.113  Sum_probs=43.3

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+|+|..... .++..+...++.+..   .+.++ .+|.|+.|.
T Consensus        77 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~pi-ilv~NK~Dl  146 (201)
T 2hup_A           77 RVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQ-LLIGNKSDL  146 (201)
T ss_dssp             EEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEE-EEEEECTTC
T ss_pred             EEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCE-EEEEECCcc
Confidence            4779999999654322333444567899999988654 456666555555544   23444 589999985

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.88  E-value=0.0097  Score=46.52  Aligned_cols=66  Identities=11%  Similarity=0.047  Sum_probs=37.5

Q ss_pred             CccEEEEcCCCCCCccchhhhhh----ccCceEEEeeCCC--cchHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQT----LQLSGALIVSTPQ--DVALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l----~~ad~viiv~~~~--~~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+    ..+|.+++|....  ..++......+..+..       .+.++ .+|+|+.|.
T Consensus        90 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  168 (193)
T 2ged_A           90 GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDI-LIACNKSEL  168 (193)
T ss_dssp             CTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCE-EEEEECTTS
T ss_pred             CCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCE-EEEEEchHh
Confidence            46788999996432211111112    2378888888775  3455554443333321       24555 499999985

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=96.88  E-value=0.014  Score=44.72  Aligned_cols=66  Identities=12%  Similarity=0.025  Sum_probs=40.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++...+.. ++..+...++.+..       .+.++ .+|+|+.+.
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~-i~v~nK~Dl  128 (177)
T 1wms_A           55 FVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF-VILGNKIDI  128 (177)
T ss_dssp             EEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCE-EEEEECTTC
T ss_pred             EEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcE-EEEEECCcc
Confidence            46799999996443222333445568888888776543 44444444444332       34454 599999985

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=96.87  E-value=0.0014  Score=59.36  Aligned_cols=66  Identities=12%  Similarity=0.058  Sum_probs=41.0

Q ss_pred             CCccEEEEcCCCCCCcc---------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA---------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~---------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ....+.|+|||+ +...         ......+..+|.+|+++.....-...-....+.+++.+.+++ +|+|+.+.
T Consensus        69 ~~~~~~liDT~G-~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~~~~pvi-lV~NK~D~  143 (456)
T 4dcu_A           69 LNYDFNLIDTGG-IDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVV-LAVNKLDN  143 (456)
T ss_dssp             CSSCCEEECCCC-------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTTCCSCEE-EEEECC--
T ss_pred             CCceEEEEECCC-CCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHHcCCCEE-EEEECccc
Confidence            456789999985 2210         112233456899999988765433444566677776676665 89999984

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=96.86  E-value=0.0049  Score=57.53  Aligned_cols=67  Identities=12%  Similarity=0.126  Sum_probs=48.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      .+.+.|+|||+...........+..+|.+|+|.+.+..-...+...+..+...+.|++ +++|+.|..
T Consensus        69 ~~~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~~vPiI-VViNKiDl~  135 (594)
T 1g7s_A           69 LPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFV-VAANKIDRI  135 (594)
T ss_dssp             CCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEE-EEEECGGGS
T ss_pred             cCCEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCeEE-EEecccccc
Confidence            3469999999765433333344556899999998877544556666777777788865 999999964

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=96.84  E-value=0.012  Score=44.61  Aligned_cols=67  Identities=21%  Similarity=0.153  Sum_probs=36.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|+|+...........+..+|.++++...+ ..++..+...+..+.+.    +.++ .+|.|+.|.
T Consensus        47 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  118 (166)
T 3q72_A           47 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPI-ILVGNKSDL  118 (166)
T ss_dssp             EEEEEEEEECC---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCE-EEEEECTTC
T ss_pred             EEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEecccc
Confidence            4567889999864432223334455788888887654 44566666666666543    4455 499999985

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.84  E-value=0.0025  Score=48.21  Aligned_cols=66  Identities=9%  Similarity=-0.065  Sum_probs=39.8

Q ss_pred             CccEEEEcCCCCCCc-------cchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGD-------AQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~-------~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ...+.|+|+|+....       .......+..+|.++++.......-.......+++...+.++ .+|.|+.|.
T Consensus        48 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  120 (161)
T 2dyk_A           48 RGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYLRRKGKPV-ILVATKVDD  120 (161)
T ss_dssp             TEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHHHHHHTCCE-EEEEECCCS
T ss_pred             CceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHHHHhcCCCE-EEEEECccc
Confidence            456889999864431       011223355788888888876532222234455555556665 499999984

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=96.83  E-value=0.015  Score=44.16  Aligned_cols=68  Identities=10%  Similarity=0.013  Sum_probs=43.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+...++.+....  ..++.+|.|+.|.
T Consensus        53 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl  123 (170)
T 1z0j_A           53 ELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL  123 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTC
T ss_pred             eEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCcc
Confidence            35779999999643322333444567898888887654 35566655556555432  2334588899985

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=96.80  E-value=0.0055  Score=46.57  Aligned_cols=68  Identities=10%  Similarity=0.087  Sum_probs=43.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+.+..  ..++.+|.|+.|.
T Consensus        53 ~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl  123 (170)
T 1r2q_A           53 TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL  123 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGG
T ss_pred             EEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC
Confidence            35779999999754332333444567899999888754 35666666655554421  2234478899985

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.80  E-value=0.047  Score=41.94  Aligned_cols=68  Identities=18%  Similarity=0.090  Sum_probs=42.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+...........+..+|.++++.+... .++..+...+..+.+.   ....+.+|+|+.|.
T Consensus        60 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  131 (183)
T 1moz_A           60 KNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ  131 (183)
T ss_dssp             TTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCC
Confidence            34678999999654322333444557898888887643 4677776666665432   22345599999984

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=96.79  E-value=0.0048  Score=57.55  Aligned_cols=67  Identities=13%  Similarity=0.067  Sum_probs=48.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|.+.|+|||+..+........+..+|.+|+|++........+...+..+...+.+++ +|+|+.|.
T Consensus        71 ~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~~ipiI-vviNKiDl  137 (600)
T 2ywe_A           71 NTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVEQDLVII-PVINKIDL  137 (600)
T ss_dssp             CEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHTTCEEE-EEEECTTS
T ss_pred             CeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHCCCCEE-EEEeccCc
Confidence            45889999999766543344455678999999998876544455555555556777754 99999984

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.79  E-value=0.0015  Score=54.43  Aligned_cols=39  Identities=38%  Similarity=0.466  Sum_probs=32.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|.+. +-.|+||||++..|+..|.. .|..++++|.|.
T Consensus         4 ~~lIvl~-G~pGSGKSTla~~La~~L~~-~g~~~i~~~~D~   42 (260)
T 3a4m_A            4 IMLIILT-GLPGVGKSTFSKNLAKILSK-NNIDVIVLGSDL   42 (260)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHH-TTCCEEEECTHH
T ss_pred             CEEEEEE-cCCCCCHHHHHHHHHHHHHh-CCCEEEEECchH
Confidence            4666665 66999999999999999998 999998887763

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=96.76  E-value=0.0036  Score=50.31  Aligned_cols=66  Identities=21%  Similarity=0.188  Sum_probs=41.9

Q ss_pred             CCccEEEEcCCCCCCcc-----------ch---hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccc
Q 022525          138 GNLDILVIDMPPGTGDA-----------QL---TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMS  203 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-----------~~---~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~  203 (295)
                      ..+.+.|+|||+ +...           ..   .+.....+|.+++++.....--......++++...+.+++ +|+|+.
T Consensus        77 ~~~~~~l~DtpG-~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p~i-~v~nK~  154 (223)
T 4dhe_A           77 AEPVAHLVDLPG-YGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPTGKPIH-SLLTKC  154 (223)
T ss_dssp             TSCSEEEEECCC-CCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCCEE-EEEECG
T ss_pred             CCCcEEEEcCCC-CCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE-EEEecc
Confidence            568899999995 3321           01   1111223677888887765433445566777777677765 999999


Q ss_pred             cC
Q 022525          204 CF  205 (295)
Q Consensus       204 ~~  205 (295)
                      |.
T Consensus       155 Dl  156 (223)
T 4dhe_A          155 DK  156 (223)
T ss_dssp             GG
T ss_pred             cc
Confidence            84

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=96.76  E-value=0.0046  Score=47.16  Aligned_cols=89  Identities=16%  Similarity=0.090  Sum_probs=48.8

Q ss_pred             CCccEEEEcCCCCCCccc-hhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQ-LTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCFICPHCS  211 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~-~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~  211 (295)
                      ..+.+.++|+|+...... +....+..+|.++++...+. .++..+...+..+...    +.++ .+|.|+.|....   
T Consensus        49 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~~~---  124 (169)
T 3q85_A           49 EEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPV-ILVGNKSDLARS---  124 (169)
T ss_dssp             EEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCE-EEEEECTTCGGG---
T ss_pred             eEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCE-EEEeeCcchhhc---
Confidence            357788999986433211 22223446888888877654 3555555555555432    4555 499999985311   


Q ss_pred             CCccccCCchhhHHHHHhCCcE
Q 022525          212 EPSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~g~~~  233 (295)
                         .........++.+.++.++
T Consensus       125 ---~~~~~~~~~~~~~~~~~~~  143 (169)
T 3q85_A          125 ---REVSLEEGRHLAGTLSCKH  143 (169)
T ss_dssp             ---CCSCHHHHHHHHHHTTCEE
T ss_pred             ---ccCCHHHHHHHHHHcCCcE
Confidence               1112234556666666543

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.75  E-value=0.0031  Score=49.17  Aligned_cols=41  Identities=27%  Similarity=0.332  Sum_probs=35.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +++++|++ ..|+||||+...|...+.. .|.+|..|..|+..
T Consensus         6 ~~~i~i~G-~sGsGKTTl~~~l~~~l~~-~g~~v~~i~~~~~~   46 (174)
T 1np6_A            6 IPLLAFAA-WSGTGKTTLLKKLIPALCA-RGIRPGLIKHTHHD   46 (174)
T ss_dssp             CCEEEEEC-CTTSCHHHHHHHHHHHHHH-TTCCEEEEEECCC-
T ss_pred             ceEEEEEe-CCCCCHHHHHHHHHHhccc-cCCceeEEeeCCCc
Confidence            57787765 7799999999999999999 99999999988754

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=96.74  E-value=0.023  Score=45.73  Aligned_cols=90  Identities=16%  Similarity=0.076  Sum_probs=56.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+-|.||++.-....+...-...++.++++...+. .++..+...++.+..   .+.+ +.+|.|+.|...      
T Consensus        60 ~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~p-iilVgNK~Dl~~------  132 (216)
T 4dkx_A           60 RTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVI-IMLVGNKTDLAD------  132 (216)
T ss_dssp             CEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE-EEEEEECTTCGG------
T ss_pred             eEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCe-EEEEeeccchHh------
Confidence            45778899999654433333344557888888876544 467777666666654   2344 458999998432      


Q ss_pred             ccccCCchhhHHHHHhCCcEE
Q 022525          214 SFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ......+..+++.+.++.+++
T Consensus       133 ~r~V~~~e~~~~a~~~~~~~~  153 (216)
T 4dkx_A          133 KRQVSIEEGERKAKELNVMFI  153 (216)
T ss_dssp             GCCSCHHHHHHHHHHHTCEEE
T ss_pred             cCcccHHHHhhHHHHhCCeeE
Confidence            122333557778888886543

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=96.73  E-value=0.014  Score=46.03  Aligned_cols=68  Identities=9%  Similarity=-0.057  Sum_probs=42.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc-------CCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK-------VQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.|+|+|+...........+..+|.+|+|..... .++..+...+..+..       .+.++ .+|+|+.|..
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~  130 (207)
T 1vg8_A           55 RLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF-VVLGNKIDLE  130 (207)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCE-EEEEECTTSS
T ss_pred             EEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcE-EEEEECCCCc
Confidence            45779999999643322233344557899999987654 345555444444332       23444 5999999853

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=96.71  E-value=0.0044  Score=52.78  Aligned_cols=66  Identities=12%  Similarity=0.152  Sum_probs=40.0

Q ss_pred             CCccEEEEcCCCCC-Cc--------cchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGT-GD--------AQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~-~~--------~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.++++|||+.. ..        .......+..+|.++++......+ .......+.+...+.|.+ +|+|+.|.
T Consensus        54 ~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~~~-~~~~~i~~~l~~~~~P~i-lvlNK~D~  128 (301)
T 1ega_A           54 GAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWT-PDDEMVLNKLREGKAPVI-LAVNKVDN  128 (301)
T ss_dssp             TTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCCC-HHHHHHHHHHHSSSSCEE-EEEESTTT
T ss_pred             CCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCCCC-HHHHHHHHHHHhcCCCEE-EEEECccc
Confidence            45678999998543 10        011234455788888877765432 223345556665566765 88899984

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=96.71  E-value=0.0019  Score=51.24  Aligned_cols=36  Identities=17%  Similarity=0.087  Sum_probs=31.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      ++++.+ -+.-|.||||.+..++..+.. +|++|+++-
T Consensus         8 g~i~v~-~G~mgsGKTT~ll~~a~r~~~-~g~kV~v~k   43 (191)
T 1xx6_A            8 GWVEVI-VGPMYSGKSEELIRRIRRAKI-AKQKIQVFK   43 (191)
T ss_dssp             CEEEEE-ECSTTSSHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CEEEEE-ECCCCCcHHHHHHHHHHHHHH-CCCEEEEEE
Confidence            565555 577899999999999999999 999999995

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=96.70  E-value=0.021  Score=43.41  Aligned_cols=66  Identities=14%  Similarity=0.017  Sum_probs=43.1

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++..... .++......+..+..    .+.+ +.+|+|+.|.
T Consensus        50 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  120 (171)
T 1upt_A           50 NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAI-LVVFANKQDM  120 (171)
T ss_dssp             TEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTS
T ss_pred             CEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCE-EEEEEECCCC
Confidence            4678999999654322333344557899999887654 356666665555543    2444 4599999984

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=96.68  E-value=0.029  Score=43.00  Aligned_cols=67  Identities=10%  Similarity=-0.022  Sum_probs=38.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+...+..+..       .+.++ .+|+|+.|.
T Consensus        56 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  130 (182)
T 1ky3_A           56 KVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPF-VILGNKIDA  130 (182)
T ss_dssp             CCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCE-EEEEECTTS
T ss_pred             cEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcE-EEEEECCcc
Confidence            45789999999643322233344557899998887654 345555544444432       34454 599999984

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=96.67  E-value=0.003  Score=58.07  Aligned_cols=67  Identities=18%  Similarity=0.176  Sum_probs=51.1

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      .+.+.|+|||+...........+..+|.+++|+..+..........+..+...+.|++ +++|+.|..
T Consensus        51 g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~~~vPiI-VViNKiDl~  117 (537)
T 3izy_P           51 GEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVPIV-LAINKCDKA  117 (537)
T ss_dssp             SSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHHHHHHHHHTTTCCEE-ECCBSGGGT
T ss_pred             CCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEE-EEEeccccc
Confidence            3457899999754433344445667899999999888777788888888888888864 999999953

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=96.65  E-value=0.023  Score=43.91  Aligned_cols=67  Identities=13%  Similarity=0.035  Sum_probs=44.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+...........+..+|.+++|.+.... ++..+...+..+.+    .+.+ +.+|+|+.|.
T Consensus        63 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl  134 (181)
T 2h17_A           63 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQDV  134 (181)
T ss_dssp             TTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCe-EEEEEECCCc
Confidence            347799999996533223334456678999998887653 67777666665543    3344 4599999984

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=96.63  E-value=0.033  Score=41.96  Aligned_cols=67  Identities=16%  Similarity=0.110  Sum_probs=43.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++......+..+...    +.+ +.+|.|+.|.
T Consensus        42 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  113 (164)
T 1r8s_A           42 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV-LLVFANKQDL  113 (164)
T ss_dssp             SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTS
T ss_pred             CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCe-EEEEEECcCC
Confidence            45779999999654322233334567899988887654 4567666666655432    444 4599999984

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.62  E-value=0.0049  Score=48.42  Aligned_cols=67  Identities=18%  Similarity=0.120  Sum_probs=43.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+|+|..... .++..+...++.+..   .+.+ +.+|+|+.|.
T Consensus        73 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilV~NK~Dl  143 (192)
T 2il1_A           73 KKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE-LLLVGNKLDC  143 (192)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECGGG
T ss_pred             eEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECccc
Confidence            34779999999644322333444567899999888655 355555555555443   2344 4599999985

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=96.61  E-value=0.012  Score=45.62  Aligned_cols=66  Identities=14%  Similarity=0.032  Sum_probs=41.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+..   .+.+ +.+|.|+.+.
T Consensus        58 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  127 (186)
T 2bme_A           58 YVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIV-IILCGNKKDL  127 (186)
T ss_dssp             EEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECGGG
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECccc
Confidence            4678999999644322333344557898888887655 355555555444433   3444 4599999985

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.60  E-value=0.011  Score=46.86  Aligned_cols=66  Identities=17%  Similarity=0.185  Sum_probs=42.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHH-HHHHHHHhcC--CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDA-RKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~-~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++...+. .++..+ ...+..+...  +.+++ +|+|+.|.
T Consensus        72 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl  141 (207)
T 2fv8_A           72 QVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPII-LVANKKDL  141 (207)
T ss_dssp             EEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEE-EEEECGGG
T ss_pred             EEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEE-EEEEchhh
Confidence            4779999999754332333444557899998877654 355555 3444555442  55554 99999984

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=96.59  E-value=0.013  Score=46.31  Aligned_cols=66  Identities=14%  Similarity=0.038  Sum_probs=41.4

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+|++..... .++..+...+..+..   .+.+ +.+|+|+.|.
T Consensus        73 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  142 (200)
T 2o52_A           73 TVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIV-VILCGNKKDL  142 (200)
T ss_dssp             EEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCE-EEEEEECGGG
T ss_pred             eeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECCCc
Confidence            4779999999632211223344567899998887654 355555555555443   2444 4599999985

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=96.59  E-value=0.008  Score=55.31  Aligned_cols=92  Identities=13%  Similarity=0.004  Sum_probs=66.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      ..+.+.|+|||+..+........+..+|.+|+|+.+...........+..+...+.+++ +|+|+.|....        .
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~~iPii-vviNK~Dl~~~--------~  150 (528)
T 3tr5_A           80 KDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRHTPIM-TFINKMDRDTR--------P  150 (528)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTTTCCEE-EEEECTTSCCS--------C
T ss_pred             CCEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEeCCCCccc--------c
Confidence            46889999999766544555666778999999999887666667778888888888775 99999984211        0


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      .....+++.+.++..+.. .+|
T Consensus       151 ~~~~l~ei~~~l~~~~~~~~~p  172 (528)
T 3tr5_A          151 SIELLDEIESILRIHCAPVTWP  172 (528)
T ss_dssp             HHHHHHHHHHHHCCEEEESEEE
T ss_pred             HHHHHHHHHHhhCCCceeeecc
Confidence            123477888888876654 344

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=96.57  E-value=0.018  Score=46.01  Aligned_cols=67  Identities=7%  Similarity=-0.035  Sum_probs=43.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHH-HHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALID-ARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~-~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+++...........+..+|.+|++.+.+. .++.. ....+..+...  +.++ .+|.|+.|.
T Consensus        73 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pi-ilv~nK~Dl  143 (214)
T 3q3j_B           73 QRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV-LLIGCKTDL  143 (214)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEE-EEEEECGGG
T ss_pred             EEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEEChhh
Confidence            45789999999644322333444567899998887654 35555 34555555443  4444 589999985

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=96.56  E-value=0.016  Score=46.01  Aligned_cols=66  Identities=9%  Similarity=-0.023  Sum_probs=41.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++.+... .++..+...++.+..   .+.+ +.+|.|+.|.
T Consensus        74 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~NK~Dl  143 (201)
T 2ew1_A           74 KVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVI-TVLVGNKIDL  143 (201)
T ss_dssp             EEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECGGG
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCC
Confidence            4678999999643322233444567899999887654 355555555555543   2334 4589999985

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=96.49  E-value=0.011  Score=50.52  Aligned_cols=38  Identities=11%  Similarity=0.091  Sum_probs=32.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhC--CCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKC--QLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~--g~~VlliD~D~~   72 (295)
                      +..+.+..|+||||++.+++..+++ .  |.+|+.||....
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~-~g~g~~vlyId~E~s   69 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMR-QYPDAVCLFYDSEFG   69 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHH-HCTTCEEEEEESSCC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEeccch
Confidence            3455677999999999999999998 6  889999998654

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=96.48  E-value=0.018  Score=45.46  Aligned_cols=67  Identities=16%  Similarity=0.150  Sum_probs=42.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHH-HHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDA-RKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~-~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++... ...++.+...  +.+++ +|+|+.|.
T Consensus        71 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl  141 (201)
T 2gco_A           71 KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPII-LVGNKKDL  141 (201)
T ss_dssp             EEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEE-EEEECGGG
T ss_pred             EEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEE-EEEecHHh
Confidence            34778999999643322233344557899998877554 356555 3444555442  55554 99999985

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=96.41  E-value=0.01  Score=46.24  Aligned_cols=42  Identities=7%  Similarity=0.004  Sum_probs=29.3

Q ss_pred             cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          163 QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       163 ~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+|.+++++..............+++...+.+++ +|+|+.|.
T Consensus       104 ~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p~i-~v~nK~Dl  145 (195)
T 3pqc_A          104 SLQMVFLLVDGRIPPQDSDLMMVEWMKSLNIPFT-IVLTKMDK  145 (195)
T ss_dssp             TEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEE-EEEECGGG
T ss_pred             CceEEEEEecCCCCCCHHHHHHHHHHHHcCCCEE-EEEEChhc
Confidence            3488888887665434444466677777777765 99999984

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.37  E-value=0.0058  Score=48.60  Aligned_cols=41  Identities=24%  Similarity=0.260  Sum_probs=35.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.+|+++ +..|+||||++..|+..+.. .|.+|.+++.|...
T Consensus        22 ~~~i~i~-G~~GsGKstl~~~l~~~~~~-~~~~v~~~~~d~~~   62 (201)
T 1rz3_A           22 RLVLGID-GLSRSGKTTLANQLSQTLRE-QGISVCVFHMDDHI   62 (201)
T ss_dssp             SEEEEEE-ECTTSSHHHHHHHHHHHHHH-TTCCEEEEEGGGGC
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHhh-cCCeEEEeccCccc
Confidence            5777775 77999999999999999998 89999999888654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.36  E-value=0.0046  Score=53.03  Aligned_cols=38  Identities=16%  Similarity=0.209  Sum_probs=33.2

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.+..|+||||++.++|..++. .|.+|+++++...
T Consensus        70 l~li~G~pG~GKTtl~l~ia~~~a~-~g~~vl~~slE~s  107 (315)
T 3bh0_A           70 FVLIAARPSMGKTAFALKQAKNMSD-NDDVVNLHSLEMG  107 (315)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHT-TTCEEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHH-cCCeEEEEECCCC
Confidence            4444699999999999999999999 8999999998843

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.33  E-value=0.0049  Score=50.34  Aligned_cols=40  Identities=13%  Similarity=0.091  Sum_probs=34.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.++ +..|+||||++.+++..++. .|.+|++++.+..
T Consensus        23 G~~~~i~-G~~GsGKTtl~~~~~~~~~~-~~~~v~~~~~e~~   62 (247)
T 2dr3_A           23 RNVVLLS-GGPGTGKTIFSQQFLWNGLK-MGEPGIYVALEEH   62 (247)
T ss_dssp             TCEEEEE-ECTTSSHHHHHHHHHHHHHH-TTCCEEEEESSSC
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHh-cCCeEEEEEccCC
Confidence            4566665 67999999999999999999 8999999998864

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=96.33  E-value=0.0032  Score=50.61  Aligned_cols=36  Identities=14%  Similarity=-0.000  Sum_probs=31.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +++. |+.+.-|.||||.+..++..+.. +|++|+++-
T Consensus        28 G~l~-vitG~MgsGKTT~lL~~a~r~~~-~g~kVli~k   63 (214)
T 2j9r_A           28 GWIE-VICGSMFSGKSEELIRRVRRTQF-AKQHAIVFK   63 (214)
T ss_dssp             CEEE-EEECSTTSCHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CEEE-EEECCCCCcHHHHHHHHHHHHHH-CCCEEEEEE
Confidence            5544 44588899999999999999999 999999994

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=96.31  E-value=0.038  Score=43.00  Aligned_cols=67  Identities=12%  Similarity=0.140  Sum_probs=44.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|.+... .++..+...+..+.+    .+.++ .+|+|+.|.
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~NK~Dl  136 (188)
T 1zd9_A           65 GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPV-LVLGNKRDL  136 (188)
T ss_dssp             TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCE-EEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCE-EEEEECCCC
Confidence            56789999999643322233344567899999888654 467776666655543    34555 599999984

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.20  E-value=0.0091  Score=51.98  Aligned_cols=40  Identities=15%  Similarity=0.200  Sum_probs=34.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.|++ ..|+||||++.+++..++. .|.+|++||....
T Consensus        61 G~i~~I~G-ppGsGKSTLal~la~~~~~-~gg~VlyId~E~s  100 (356)
T 3hr8_A           61 GRIVEIFG-QESSGKTTLALHAIAEAQK-MGGVAAFIDAEHA  100 (356)
T ss_dssp             TEEEEEEE-STTSSHHHHHHHHHHHHHH-TTCCEEEEESSCC
T ss_pred             CcEEEEEC-CCCCCHHHHHHHHHHHHHh-cCCeEEEEecccc
Confidence            56777765 5999999999999999999 9999999988754

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.18  E-value=0.0056  Score=47.93  Aligned_cols=37  Identities=24%  Similarity=0.319  Sum_probs=31.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.|.|. +-.|+||||++..|+..+.. .|.++..+|.|
T Consensus         2 ~~I~i~-G~~GsGKsT~~~~L~~~l~~-~g~~~~~~~~~   38 (194)
T 1nks_A            2 KIGIVT-GIPGVGKSTVLAKVKEILDN-QGINNKIINYG   38 (194)
T ss_dssp             EEEEEE-ECTTSCHHHHHHHHHHHHHT-TTCCEEEEEHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHh-cCceEEEEECC
Confidence            556664 67899999999999999998 89999888654

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=96.18  E-value=0.019  Score=52.98  Aligned_cols=88  Identities=7%  Similarity=-0.098  Sum_probs=51.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCcc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPSF  215 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~~  215 (295)
                      ..+.+.|+|+|+.-.........+..+|.+|+|.+....  ......+..+...  +.+++ +|.|+.|.....      
T Consensus        96 ~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~--~~~~~~~~~l~~~~~~~pvi-lV~NK~Dl~~~~------  166 (535)
T 3dpu_A           96 KECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTD--SNKHYWLRHIEKYGGKSPVI-VVMNKIDENPSY------  166 (535)
T ss_dssp             TTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGG--GGHHHHHHHHHHHSSSCCEE-EEECCTTTCTTC------
T ss_pred             ceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCc--hhHHHHHHHHHHhCCCCCEE-EEEECCCccccc------
Confidence            468899999997433222333345578999999876543  4445555555543  35554 999999953211      


Q ss_pred             ccCCchhhHHHHHhCCcEE
Q 022525          216 IFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       216 ~~~~~~~~~~~~~~g~~~~  234 (295)
                      .......++.....+.+++
T Consensus       167 ~v~~~~~~~~~~~~~~~~~  185 (535)
T 3dpu_A          167 NIEQKKINERFPAIENRFH  185 (535)
T ss_dssp             CCCHHHHHHHCGGGTTCEE
T ss_pred             ccCHHHHHHHHHhcCCceE
Confidence            1112234455555565554

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.16  E-value=0.0061  Score=53.03  Aligned_cols=39  Identities=23%  Similarity=0.303  Sum_probs=34.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.++.|+ +..|+||||++.+++..++. .|.+|++||++.
T Consensus        61 G~iv~I~-G~pGsGKTtLal~la~~~~~-~g~~vlyi~~E~   99 (349)
T 2zr9_A           61 GRVIEIY-GPESSGKTTVALHAVANAQA-AGGIAAFIDAEH   99 (349)
T ss_dssp             TSEEEEE-ESTTSSHHHHHHHHHHHHHH-TTCCEEEEESSC
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCC
Confidence            4666665 67999999999999999999 999999999985

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=96.16  E-value=0.014  Score=52.36  Aligned_cols=66  Identities=14%  Similarity=0.044  Sum_probs=38.7

Q ss_pred             CCccEEEEcCCCCCCcc---------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEecccc
Q 022525          138 GNLDILVIDMPPGTGDA---------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~---------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~  204 (295)
                      .+..+.|+|||+-....         ......+..||.+++|++....-...-....+++++.+.+++ +|+|+.+
T Consensus        47 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~~~p~i-lv~NK~D  121 (439)
T 1mky_A           47 YGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTI-LVANKAE  121 (439)
T ss_dssp             TTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEE-EEEESCC
T ss_pred             CCeEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEeCCC
Confidence            34568899998633210         112334567899999987654211122334455555566654 8999987

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.15  E-value=0.0051  Score=47.76  Aligned_cols=41  Identities=15%  Similarity=0.263  Sum_probs=32.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      |+++++|++ ..|+||||++..|+..+.. .|.++..|-.|..
T Consensus         1 m~~~v~IvG-~SGsGKSTL~~~L~~~~~~-~g~~~G~I~~dg~   41 (171)
T 2f1r_A            1 MSLILSIVG-TSDSGKTTLITRMMPILRE-RGLRVAVVKRHAH   41 (171)
T ss_dssp             --CEEEEEE-SCHHHHHHHHHHHHHHHHH-TTCCEEEEEC---
T ss_pred             CceEEEEEC-CCCCCHHHHHHHHHHHhhh-cCCceEEEEEcCc
Confidence            367899987 7799999999999999999 8988887777754

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.14  E-value=0.0068  Score=52.39  Aligned_cols=38  Identities=11%  Similarity=0.295  Sum_probs=33.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.+..|+||||++.++|..++. .|.+|+++.+.-.
T Consensus        48 LiiIaG~pG~GKTt~al~ia~~~a~-~g~~Vl~fSlEms   85 (338)
T 4a1f_A           48 LVIIGARPSMGKTSLMMNMVLSALN-DDRGVAVFSLEMS   85 (338)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHH-TTCEEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHH-cCCeEEEEeCCCC
Confidence            4444699999999999999999999 9999999988743

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.13  E-value=0.0029  Score=53.57  Aligned_cols=41  Identities=22%  Similarity=0.377  Sum_probs=32.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ..+|+|. +..|+||||+|..|+..|.. .|.++.+||+|--.
T Consensus         5 ~~iIgIt-G~sGSGKSTva~~L~~~lg~-~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            5 HPIISVT-GSSGAGTSTVKHTFDQIFRR-EGVKAVSIEGDAFH   45 (290)
T ss_dssp             SCEEEEE-SCC---CCTHHHHHHHHHHH-HTCCEEEEEGGGGB
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHHhh-cCCCeeEeecchhh
Confidence            4678886 78899999999999999988 78899999999655

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.13  E-value=0.011  Score=47.28  Aligned_cols=67  Identities=10%  Similarity=0.064  Sum_probs=38.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhcc----CceEEEeeCCC--cchHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQ----LSGALIVSTPQ--DVALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~----ad~viiv~~~~--~~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      .+++.|+|+|+...........+..    +|.++++....  ..++......+..+..       .+.++ .+|.|+.|.
T Consensus        54 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  132 (218)
T 1nrj_B           54 GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDI-LIACNKSEL  132 (218)
T ss_dssp             GSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCE-EEEEECTTS
T ss_pred             CceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCE-EEEEEchHh
Confidence            4678999999643321111222222    78888887765  2455555444443322       34555 599999985


Q ss_pred             C
Q 022525          206 I  206 (295)
Q Consensus       206 ~  206 (295)
                      .
T Consensus       133 ~  133 (218)
T 1nrj_B          133 F  133 (218)
T ss_dssp             T
T ss_pred             c
Confidence            3

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=96.12  E-value=0.0081  Score=53.92  Aligned_cols=67  Identities=12%  Similarity=0.029  Sum_probs=38.0

Q ss_pred             CCccEEEEcCCCCCCc--------cchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGD--------AQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~--------~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+..+.|+|||+....        .......+..||.++++++....-...-....+.+++.+.+++ +|+|+.+.
T Consensus        49 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~~~~pvi-lv~NK~D~  123 (436)
T 2hjg_A           49 LNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVV-LAVNKLDN  123 (436)
T ss_dssp             CSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTTCCSCEE-EEEECCCC
T ss_pred             CCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECccC
Confidence            4567899999864310        0122334567899998887654322222345556666666664 99999984

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.10  E-value=0.006  Score=54.90  Aligned_cols=40  Identities=15%  Similarity=0.171  Sum_probs=34.4

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      -+.++.+..|+||||++.++|..++. .|.+|+++.+.-..
T Consensus       198 ~liiIaG~pG~GKTtlal~ia~~~a~-~g~~vl~fSlEms~  237 (444)
T 3bgw_A          198 NFVLIAARPSMGKTAFALKQAKNMSD-NDDVVNLHSLEMGK  237 (444)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHHH-TTCEEEEECSSSCT
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHH-cCCEEEEEECCCCH
Confidence            34455689999999999999999999 89999999888543

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.04  E-value=0.0079  Score=48.17  Aligned_cols=37  Identities=24%  Similarity=0.208  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.+ .+..|+||||++.+++.   . .|.+|+++|.+.+
T Consensus        20 G~~~~i-~G~~GsGKTtl~~~l~~---~-~~~~v~~i~~~~~   56 (220)
T 2cvh_A           20 GVLTQV-YGPYASGKTTLALQTGL---L-SGKKVAYVDTEGG   56 (220)
T ss_dssp             TSEEEE-ECSTTSSHHHHHHHHHH---H-HCSEEEEEESSCC
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHH---H-cCCcEEEEECCCC
Confidence            455555 58899999999999998   5 6889999998864

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=96.02  E-value=0.0034  Score=58.68  Aligned_cols=68  Identities=9%  Similarity=-0.057  Sum_probs=36.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-------HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-------LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+|+|+......       ...+...+..+...+.+.+.+|+|+.+.
T Consensus       253 ~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~iIvviNKiDl  327 (592)
T 3mca_A          253 DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDL  327 (592)
T ss_dssp             ------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCCEEEEEECGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            4578999999975432223344456789888888776532       3445566666677788756689999984

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=96.02  E-value=0.02  Score=45.33  Aligned_cols=67  Identities=16%  Similarity=0.044  Sum_probs=42.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++.... ..+..+...  +.++ .+|.|+.|.
T Consensus        76 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  146 (204)
T 4gzl_A           76 KPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTKLDL  146 (204)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCE-EEEEECHHH
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEechhh
Confidence            45778899999643322333445567899998887654 3555554 445555443  5555 499999984

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.02  E-value=0.0056  Score=50.59  Aligned_cols=42  Identities=26%  Similarity=0.336  Sum_probs=32.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh----CCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK----CQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~----~g~~VlliD~D~~~   73 (295)
                      +.+|+|+ +-.|+||||+|..|+..|...    .+++|++||+|--.
T Consensus        22 ~~iI~I~-G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           22 PFLIGVS-GGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             cEEEEEE-CCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            5677775 889999999999998876641    26789999998543

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=95.98  E-value=0.012  Score=58.63  Aligned_cols=68  Identities=21%  Similarity=0.224  Sum_probs=48.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+|+|+.........+...+..+...+.+.+.+++|+.|.
T Consensus       357 ~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~lgIP~IIVVINKiDL  424 (1289)
T 3avx_A          357 PTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDM  424 (1289)
T ss_dssp             SSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHHTCSCEEEEEECCTT
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHcCCCeEEEEEeeccc
Confidence            56789999999644322223344567899999998877555556666666666788865689999984

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=95.95  E-value=0.0096  Score=46.57  Aligned_cols=40  Identities=5%  Similarity=0.103  Sum_probs=25.7

Q ss_pred             ceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          165 SGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       165 d~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      |.++++.......-......++++...+.+++ +|+|+.|.
T Consensus       107 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~i-~v~nK~Dl  146 (195)
T 1svi_A          107 KAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVI-VIATKADK  146 (195)
T ss_dssp             EEEEEEEETTSCCCHHHHHHHHHHHHTTCCEE-EEEECGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECccc
Confidence            77888776554322223345566666666765 99999984

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=95.91  E-value=0.0076  Score=54.85  Aligned_cols=67  Identities=18%  Similarity=0.187  Sum_probs=48.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|||+...........+..+|.++++++.+......+...+..+...+.+. .+|+|+.|.
T Consensus        71 ~~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~ip~-IvviNK~Dl  137 (482)
T 1wb1_A           71 ENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPI-IVVITKSDN  137 (482)
T ss_dssp             TTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCB-CEEEECTTS
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHcCCCE-EEEEECCCc
Confidence            3477999999964332223344566789999999887655556666667777788888 599999984

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.83  E-value=0.015  Score=46.14  Aligned_cols=40  Identities=38%  Similarity=0.282  Sum_probs=33.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+.+|++. +..|+||||++..|+..+.. .|.-+..+|.|.
T Consensus        24 ~g~~i~l~-G~sGsGKSTl~~~La~~l~~-~G~~~~~~d~d~   63 (200)
T 3uie_A           24 KGCVIWVT-GLSGSGKSTLACALNQMLYQ-KGKLCYILDGDN   63 (200)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHH
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHHh-cCceEEEecCch
Confidence            36778776 88899999999999999997 898877888764

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=95.78  E-value=0.11  Score=41.79  Aligned_cols=68  Identities=15%  Similarity=-0.032  Sum_probs=39.3

Q ss_pred             CCccEEEEcCCCCCCcc---c-----hh-hhhhccCceEEEeeCCCcc-h--HHHHHHHHHHHhcC--CCCeeeEEeccc
Q 022525          138 GNLDILVIDMPPGTGDA---Q-----LT-TTQTLQLSGALIVSTPQDV-A--LIDARKGITMFSKV--QVPILGLVENMS  203 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~---~-----~~-~~~l~~ad~viiv~~~~~~-s--~~~~~~~~~~l~~~--~~~~~~~ViN~~  203 (295)
                      ..+.+.|+|||+.....   .     .. ......+|.+++|.+.+.. +  .......+..+...  +.++ .+|+|+.
T Consensus        74 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~pi-ilv~nK~  152 (228)
T 2qu8_A           74 KLNKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSI-VIGFNKI  152 (228)
T ss_dssp             TTEEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCE-EEEEECG
T ss_pred             CCCeEEEEECCCCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcE-EEEEeCc
Confidence            34678999999653210   0     01 1123456888888776543 2  23334555555554  5555 5999999


Q ss_pred             cCC
Q 022525          204 CFI  206 (295)
Q Consensus       204 ~~~  206 (295)
                      |..
T Consensus       153 Dl~  155 (228)
T 2qu8_A          153 DKC  155 (228)
T ss_dssp             GGC
T ss_pred             ccC
Confidence            853

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.77  E-value=0.015  Score=45.01  Aligned_cols=40  Identities=25%  Similarity=0.294  Sum_probs=33.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|+++ +--|+||||++..|+..+.. .|.+++.+|.|.-
T Consensus         5 g~~i~l~-G~~GsGKST~~~~L~~~l~~-~g~~~i~~d~~~~   44 (179)
T 2pez_A            5 GCTVWLT-GLSGAGKTTVSMALEEYLVC-HGIPCYTLDGDNI   44 (179)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHhh-CCCcEEEECChHH
Confidence            5777775 78899999999999999988 8999988886643

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.77  E-value=0.012  Score=48.09  Aligned_cols=39  Identities=18%  Similarity=0.144  Sum_probs=31.2

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.+..|+|||+++.++|...+...|.+|++++++..
T Consensus        32 l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~   70 (251)
T 2zts_A           32 TVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEER   70 (251)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCC
Confidence            444568899999999999998765426899999988754

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=95.75  E-value=0.074  Score=42.54  Aligned_cols=66  Identities=23%  Similarity=0.217  Sum_probs=37.6

Q ss_pred             CccEEEEcCCCCCC-ccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTG-DAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~-~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      .+.++++|+++... ...+.......+|.+++|..-+ ..++..+......+.+.    +.++ .+|.|+.|.
T Consensus        86 ~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~pi-ilVgNK~DL  157 (211)
T 2g3y_A           86 SATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI-ILVGNKSDL  157 (211)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCE-EEEEECTTC
T ss_pred             eeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcE-EEEEEChHH
Confidence            45678888874322 1111111122467777776543 45677776666555532    4554 499999984

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=95.75  E-value=0.014  Score=52.43  Aligned_cols=68  Identities=13%  Similarity=0.020  Sum_probs=49.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH-------HHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL-------IDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.++|+|||+...........+..+|.+++|+..+...+       ..+.+.+..+...+.+.+.+++|+.|.
T Consensus        93 ~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl  167 (439)
T 3j2k_7           93 EKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDD  167 (439)
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCC
Confidence            56789999999754432334445567999999999877543       356666677777888855699999984

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=95.75  E-value=0.015  Score=52.48  Aligned_cols=68  Identities=6%  Similarity=0.014  Sum_probs=44.7

Q ss_pred             CCccEEEEcCCCCCC--------ccc---hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTG--------DAQ---LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~--------~~~---~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ....+.|+|||+-..        ...   .....+..+|.++++.................+...+.+++ +|+|++|..
T Consensus       241 ~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~~~~~~i-lv~NK~Dl~  319 (456)
T 4dcu_A          241 NQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVV-IVVNKWDAV  319 (456)
T ss_dssp             TTEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEE-EEEECGGGS
T ss_pred             CCceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHHcCCCEE-EEEEChhcC
Confidence            345789999985211        001   12234557899999988777555556667777777776664 999999953

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.65  E-value=0.013  Score=46.36  Aligned_cols=37  Identities=22%  Similarity=0.206  Sum_probs=31.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.+.++ +..|+||||++..++..+.. .|.+++.+++.
T Consensus        55 ~~~~l~-G~~GtGKT~la~~i~~~~~~-~~~~~~~~~~~   91 (202)
T 2w58_A           55 KGLYLH-GSFGVGKTYLLAAIANELAK-RNVSSLIVYVP   91 (202)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHHHHHT-TTCCEEEEEHH
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEEEhH
Confidence            455554 78899999999999999998 89999988664

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.62  E-value=0.014  Score=46.93  Aligned_cols=40  Identities=15%  Similarity=0.100  Sum_probs=34.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+++++ +..|+||||++..++..++. .+.+|++++.+..
T Consensus        23 G~~~~i~-G~~GsGKTtl~~~l~~~~~~-~~~~v~~~~~~~~   62 (235)
T 2w0m_A           23 GFFIALT-GEPGTGKTIFSLHFIAKGLR-DGDPCIYVTTEES   62 (235)
T ss_dssp             TCEEEEE-CSTTSSHHHHHHHHHHHHHH-HTCCEEEEESSSC
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHHHH-CCCeEEEEEcccC
Confidence            4677775 77999999999999999988 7889999998763

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=95.55  E-value=0.037  Score=52.69  Aligned_cols=64  Identities=16%  Similarity=0.069  Sum_probs=40.9

Q ss_pred             ccEEEEcCCCCCCc----cchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGD----AQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~----~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ++++|+|||+ +..    .......+..+|.+|+|+.++.. +........+.+...+.+ +.+|+|+.|.
T Consensus       174 ~~l~LiDTPG-l~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~-iiiVlNK~Dl  242 (695)
T 2j69_A          174 KGIEIVDSPG-LNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLT-VFFLVNAWDQ  242 (695)
T ss_dssp             TTEEEEECCC-HHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTSCCC-EEEEEECGGG
T ss_pred             CCeEEEECCC-CCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhhCCC-EEEEEECccc
Confidence            6899999995 321    12333455679999999887653 333333333445545666 4599999985

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=95.55  E-value=0.01  Score=46.16  Aligned_cols=37  Identities=24%  Similarity=0.295  Sum_probs=30.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDA   69 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~   69 (295)
                      ++.+.++ +..|+||||++..++..+. . .|.+++.+++
T Consensus        38 g~~~~l~-G~~G~GKTtL~~~i~~~~~~~-~g~~~~~~~~   75 (180)
T 3ec2_A           38 GKGLTFV-GSPGVGKTHLAVATLKAIYEK-KGIRGYFFDT   75 (180)
T ss_dssp             CCEEEEC-CSSSSSHHHHHHHHHHHHHHH-SCCCCCEEEH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHHHHH-cCCeEEEEEH
Confidence            4667665 7899999999999999998 6 7888877643

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=95.54  E-value=0.056  Score=43.93  Aligned_cols=21  Identities=38%  Similarity=0.498  Sum_probs=15.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLA   53 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA   53 (295)
                      ..|+++ +..|+||||+.-.|.
T Consensus        30 ~~i~lv-G~~g~GKStlin~l~   50 (239)
T 3lxx_A           30 LRIVLV-GKTGAGKSATGNSIL   50 (239)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHc
Confidence            445554 899999999987543

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=95.53  E-value=0.063  Score=45.12  Aligned_cols=67  Identities=16%  Similarity=0.084  Sum_probs=37.7

Q ss_pred             CccEEEEcCCCCCC-------cc------chhhhhhccCceEE-EeeCCCc-chHHHHHHHHHHHhcCCCCeeeEEeccc
Q 022525          139 NLDILVIDMPPGTG-------DA------QLTTTQTLQLSGAL-IVSTPQD-VALIDARKGITMFSKVQVPILGLVENMS  203 (295)
Q Consensus       139 ~yD~iiiD~~~~~~-------~~------~~~~~~l~~ad~vi-iv~~~~~-~s~~~~~~~~~~l~~~~~~~~~~ViN~~  203 (295)
                      .++++|+|||+-..       ..      ......+..++.++ ++..... .........++.+...+.+++ +|+|+.
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~~~~~~i-~V~NK~  202 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTI-GVITKL  202 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSEE-EEEECG
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCCCCCeEE-EEEEcc
Confidence            48999999995321       10      11222333566555 3544432 333333456666665566654 999999


Q ss_pred             cCC
Q 022525          204 CFI  206 (295)
Q Consensus       204 ~~~  206 (295)
                      |..
T Consensus       203 Dl~  205 (299)
T 2aka_B          203 DLM  205 (299)
T ss_dssp             GGS
T ss_pred             ccC
Confidence            853

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.39  E-value=0.019  Score=51.68  Aligned_cols=39  Identities=21%  Similarity=0.341  Sum_probs=32.6

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+..+..|+||||++.++|...+...|.+|+++++...
T Consensus       202 l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE~~  240 (444)
T 2q6t_A          202 LNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLEMP  240 (444)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECCCC
Confidence            444568999999999999999999724899999998743

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=95.37  E-value=0.023  Score=46.97  Aligned_cols=66  Identities=12%  Similarity=0.082  Sum_probs=36.0

Q ss_pred             CCccEEEEcCCCCCCccc-----------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC-----CCCeeeEEec
Q 022525          138 GNLDILVIDMPPGTGDAQ-----------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV-----QVPILGLVEN  201 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~-----------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~-----~~~~~~~ViN  201 (295)
                      ..+.++|+|||+......           .....+..+|.+|+|....... ......++++.+.     ..+.+ +|+|
T Consensus        69 ~~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~-~~~~~~~~~l~~~~~~~~~~~~i-~vv~  146 (260)
T 2xtp_A           69 GNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYT-SQDQQAAQRVKEIFGEDAMGHTI-VLFT  146 (260)
T ss_dssp             TTEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCC-HHHHHHHHHHHHHHCGGGGGGEE-EEEE
T ss_pred             CCCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCC-HHHHHHHHHHHHHhCchhhccEE-EEEE
Confidence            457799999996332110           0011344689999998877522 1222233333332     34554 5666


Q ss_pred             -cccC
Q 022525          202 -MSCF  205 (295)
Q Consensus       202 -~~~~  205 (295)
                       +.+.
T Consensus       147 nK~Dl  151 (260)
T 2xtp_A          147 HKEDL  151 (260)
T ss_dssp             CGGGG
T ss_pred             ccccc
Confidence             8884

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.35  E-value=0.018  Score=46.08  Aligned_cols=39  Identities=33%  Similarity=0.307  Sum_probs=32.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~   71 (295)
                      +++|.+. +-.|+||||++..|+..+. . .|.++..+|.|.
T Consensus        25 ~~~i~~~-G~~GsGKsT~~~~l~~~l~~~-~g~~~~~~~~d~   64 (211)
T 1m7g_A           25 GLTIWLT-GLSASGKSTLAVELEHQLVRD-RRVHAYRLDGDN   64 (211)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHHH-HCCCEEEECHHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHhccc-cCCcEEEECChH
Confidence            5777775 7789999999999999998 6 798899998653

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.34  E-value=0.0082  Score=46.78  Aligned_cols=34  Identities=29%  Similarity=0.309  Sum_probs=24.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++.|.++ +-.|+||||++..||..+    |..  ++|.|.
T Consensus         5 ~~~i~l~-G~~GsGKst~a~~La~~l----~~~--~i~~d~   38 (185)
T 3trf_A            5 LTNIYLI-GLMGAGKTSVGSQLAKLT----KRI--LYDSDK   38 (185)
T ss_dssp             CCEEEEE-CSTTSSHHHHHHHHHHHH----CCC--EEEHHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHh----CCC--EEEChH
Confidence            5667765 568999999999887655    433  456663

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=95.32  E-value=0.22  Score=38.82  Aligned_cols=66  Identities=23%  Similarity=0.212  Sum_probs=36.3

Q ss_pred             CccEEEEcCCCCCC-ccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTG-DAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~-~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .+.++++|++.... ...+.......+|.+++|..- +..++.........+.+    .+.++ .+|.|+.+.
T Consensus        55 ~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~pi-ilV~NK~Dl  126 (192)
T 2cjw_A           55 SATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI-ILVGNKSDL  126 (192)
T ss_dssp             EEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCE-EEEEECTTC
T ss_pred             EEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeE-EEEEechhh
Confidence            35567888875322 111222223346777777655 44566666655554443    24454 499999884

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.29  E-value=0.024  Score=51.16  Aligned_cols=41  Identities=29%  Similarity=0.475  Sum_probs=33.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.+ .+..|+||||++.++|..++...|.+|++++++..
T Consensus       203 G~liiI-~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~s  243 (454)
T 2r6a_A          203 SDLIIV-AARPSVGKTAFALNIAQNVATKTNENVAIFSLEMS  243 (454)
T ss_dssp             TCEEEE-ECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSSC
T ss_pred             CCEEEE-ECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCC
Confidence            345544 59999999999999999999635889999998754

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=95.23  E-value=0.024  Score=45.11  Aligned_cols=67  Identities=13%  Similarity=0.052  Sum_probs=38.4

Q ss_pred             CccEEEEcCCCCCCccc-hhhhhhccCceEEEeeCCCcc--hHHHHHHHHHHH-h-----cCCCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDAQ-LTTTQTLQLSGALIVSTPQDV--ALIDARKGITMF-S-----KVQVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~-~~~~~l~~ad~viiv~~~~~~--s~~~~~~~~~~l-~-----~~~~~~~~~ViN~~~~~  206 (295)
                      .+.+.|+|+|+...... +....+..+|.+++|.+....  +.......+..+ .     ..+.+ +.+|.|+.|..
T Consensus        53 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~  128 (214)
T 2fh5_B           53 GNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPS-LLIACNKQDIA  128 (214)
T ss_dssp             CCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCE-EEEEEECTTST
T ss_pred             ccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCC-EEEEEECCCCC
Confidence            57899999996433211 222224578999999887652  233333332222 1     12344 45999999853

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=95.20  E-value=0.058  Score=41.84  Aligned_cols=88  Identities=14%  Similarity=0.121  Sum_probs=53.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +.+|+|+.|.....    
T Consensus        69 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~----  143 (189)
T 2gf9_A           69 KRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQ-VILVGNKCDLEDER----  143 (189)
T ss_dssp             EEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGGC----
T ss_pred             eEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECccccccc----
Confidence            35779999999754333344455667899999888754 3566666666555543   344 45999999853211    


Q ss_pred             ccccCCchhhHHHHHhCCc
Q 022525          214 SFIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~  232 (295)
                        .......+++.+.++.+
T Consensus       144 --~~~~~~~~~~~~~~~~~  160 (189)
T 2gf9_A          144 --VVPAEDGRRLADDLGFE  160 (189)
T ss_dssp             --CSCHHHHHHHHHHHTCE
T ss_pred             --CCCHHHHHHHHHHcCCe
Confidence              11123456666666653

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.13  E-value=0.013  Score=53.54  Aligned_cols=40  Identities=25%  Similarity=0.239  Sum_probs=33.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~   72 (295)
                      +.++ ++.+..|+||||++.++|..++. . |.+|++++++..
T Consensus       242 G~l~-li~G~pG~GKT~lal~~a~~~a~-~~g~~vl~~s~E~s  282 (503)
T 1q57_A          242 GEVI-MVTSGSGMVMSTFVRQQALQWGT-AMGKKVGLAMLEES  282 (503)
T ss_dssp             TCEE-EEEESSCHHHHHHHHHHHHHHTT-TSCCCEEEEESSSC
T ss_pred             CeEE-EEeecCCCCchHHHHHHHHHHHH-hcCCcEEEEeccCC
Confidence            3444 55688999999999999999998 6 999999998754

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=95.13  E-value=0.1  Score=40.40  Aligned_cols=62  Identities=15%  Similarity=0.165  Sum_probs=40.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+++...   +.  .+..+|.++++...+. .++..+...+..+...    +.++ .+|.|+.|.
T Consensus        65 ~~~~l~i~Dt~G~~~---~~--~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  131 (184)
T 3ihw_A           65 QSYLLLIRDEGGPPE---LQ--FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPM-VLVGTQDAI  131 (184)
T ss_dssp             EEEEEEEEECSSSCC---HH--HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCE-EEEEECTTC
T ss_pred             EEEEEEEEECCCChh---hh--eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            346688899985433   21  3446898888876554 4566666666666553    3444 489999985

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=95.09  E-value=0.029  Score=45.23  Aligned_cols=39  Identities=8%  Similarity=0.020  Sum_probs=32.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++.+.++ +..|+||||++..++..+.. .|.++..++++.
T Consensus        52 ~~~~ll~-G~~G~GKT~la~~l~~~~~~-~~~~~~~~~~~~   90 (242)
T 3bos_A           52 VQAIYLW-GPVKSGRTHLIHAACARANE-LERRSFYIPLGI   90 (242)
T ss_dssp             CSEEEEE-CSTTSSHHHHHHHHHHHHHH-TTCCEEEEEGGG
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHHHH-cCCeEEEEEHHH
Confidence            3555554 77899999999999999999 899999998754

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=95.07  E-value=0.055  Score=47.38  Aligned_cols=67  Identities=6%  Similarity=-0.109  Sum_probs=51.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEec-cccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN-MSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN-~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+|+|++ +......+.+.+..+...+.+.+.+++| +.|.
T Consensus        58 ~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g~~~qt~e~~~~~~~~~i~~~ivvvNNK~Dl  125 (370)
T 2elf_A           58 EGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQGLDAHTGECIIALDLLGFKHGIIALTRSDST  125 (370)
T ss_dssp             SSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTCCCHHHHHHHHHHHHTTCCEEEEEECCGGGS
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCCCcHHHHHHHHHHHHcCCCeEEEEEEeccCC
Confidence            45779999999765532334455668999999999 7666777778888888888888568999 9983

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.04  E-value=0.091  Score=40.02  Aligned_cols=67  Identities=18%  Similarity=0.213  Sum_probs=44.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc-----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK-----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+++|...... ++..+...+..+..     .+.+.+.+|.|+.|.
T Consensus        55 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl  127 (178)
T 2hxs_A           55 NVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDL  127 (178)
T ss_dssp             EEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGG
T ss_pred             EEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEcccc
Confidence            47899999997544323344556679999999887653 55555555555543     255656689999985

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=95.02  E-value=0.025  Score=52.23  Aligned_cols=39  Identities=41%  Similarity=0.351  Sum_probs=33.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|.++ +..|+||||++..|+..|.. .|.++.++|.|.
T Consensus       372 ~~~I~l~-G~~GsGKSTia~~La~~L~~-~G~~~~~ld~D~  410 (546)
T 2gks_A          372 GFCVWLT-GLPCAGKSTIAEILATMLQA-RGRKVTLLDGDV  410 (546)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHH-TTCCEEEECHHH
T ss_pred             ceEEEcc-CCCCCCHHHHHHHHHHHhhh-cCCeEEEECchH
Confidence            4666665 77889999999999999999 999999999874

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.01  E-value=0.015  Score=46.13  Aligned_cols=38  Identities=26%  Similarity=0.390  Sum_probs=26.4

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +..++++|++. +-.|+||||++..|+..+    |.  .+||.|.
T Consensus        14 m~~~~~~I~l~-G~~GsGKSTla~~L~~~l----g~--~~i~~d~   51 (202)
T 3t61_A           14 VRRFPGSIVVM-GVSGSGKSSVGEAIAEAC----GY--PFIEGDA   51 (202)
T ss_dssp             -CCCSSCEEEE-CSTTSCHHHHHHHHHHHH----TC--CEEEGGG
T ss_pred             cCCCCeEEEEE-CCCCCCHHHHHHHHHHHh----CC--EEEeCCc
Confidence            34445677664 888999999999887765    32  4567764

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=94.94  E-value=0.02  Score=44.58  Aligned_cols=37  Identities=22%  Similarity=0.288  Sum_probs=28.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++|+| .+-.|+||||++..|+..+.. .|.+.-.+|.|
T Consensus         4 ~~I~i-~G~~GsGKsT~~~~L~~~l~~-~g~~~~~i~~~   40 (192)
T 1kht_A            4 KVVVV-TGVPGVGSTTSSQLAMDNLRK-EGVNYKMVSFG   40 (192)
T ss_dssp             CEEEE-ECCTTSCHHHHHHHHHHHHHT-TTCCCEEEEHH
T ss_pred             eEEEE-ECCCCCCHHHHHHHHHHHHHh-cCcceEEEehH
Confidence            45555 578899999999999999988 78555566644

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.79  E-value=0.04  Score=43.11  Aligned_cols=37  Identities=16%  Similarity=0.218  Sum_probs=30.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      ++++.+ .+.-|+||||++..++..+.. .|.+|+++-.
T Consensus         3 g~i~vi-~G~~gsGKTT~ll~~~~~~~~-~g~~v~~~~~   39 (184)
T 2orw_A            3 GKLTVI-TGPMYSGKTTELLSFVEIYKL-GKKKVAVFKP   39 (184)
T ss_dssp             CCEEEE-EESTTSSHHHHHHHHHHHHHH-TTCEEEEEEE
T ss_pred             cEEEEE-ECCCCCCHHHHHHHHHHHHHH-CCCeEEEEee
Confidence            355555 467789999999999999999 9999999843

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=94.76  E-value=0.023  Score=48.81  Aligned_cols=40  Identities=20%  Similarity=0.205  Sum_probs=32.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC------CCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC------QLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~------g~~VlliD~D~~   72 (295)
                      +.++.| .+..|+||||++.+++...+. .      |.+|++||++..
T Consensus       107 G~i~~i-~G~~GsGKT~la~~la~~~~~-~~~~gg~~~~vlyi~~e~~  152 (324)
T 2z43_A          107 RTMTEF-FGEFGSGKTQLCHQLSVNVQL-PPEKGGLSGKAVYIDTEGT  152 (324)
T ss_dssp             TSEEEE-EESTTSSHHHHHHHHHHHTTS-CGGGTCCSCEEEEEESSSC
T ss_pred             CcEEEE-ECCCCCCHhHHHHHHHHHHhc-ccccCCCCCeEEEEECCCC
Confidence            455555 477899999999999998776 5      789999998854

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=94.74  E-value=0.04  Score=46.46  Aligned_cols=40  Identities=33%  Similarity=0.361  Sum_probs=33.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+++++ +..|+||||++.++|..++...|.+|++++.+.
T Consensus        35 G~~~~i~-G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e~   74 (296)
T 1cr0_A           35 GEVIMVT-SGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEE   74 (296)
T ss_dssp             TCEEEEE-ESTTSSHHHHHHHHHHHHHHTSCCCEEEEESSS
T ss_pred             CeEEEEE-eCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCcC
Confidence            4666665 888999999999999999972388999998764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=94.71  E-value=0.056  Score=42.98  Aligned_cols=40  Identities=33%  Similarity=0.487  Sum_probs=33.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|+|. +..|+||||++..|+..+.. .|.++..|..|..
T Consensus        22 g~~v~I~-G~sGsGKSTl~~~l~~~~~~-~g~~~g~v~~d~~   61 (208)
T 3c8u_A           22 RQLVALS-GAPGSGKSTLSNPLAAALSA-QGLPAEVVPMDGF   61 (208)
T ss_dssp             CEEEEEE-CCTTSCTHHHHHHHHHHHHH-TTCCEEEEESGGG
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHhh-cCCceEEEecCCC
Confidence            6788886 88999999999999999988 6877888887753

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=94.70  E-value=0.057  Score=48.69  Aligned_cols=68  Identities=18%  Similarity=0.050  Sum_probs=48.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH-------HHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI-------DARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.++|+|||+...........+..+|.+|++++.....+.       .+.+.+..+...+.+.+.+|+|+.|.
T Consensus        83 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl  157 (458)
T 1f60_A           83 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDS  157 (458)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGG
T ss_pred             CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEcccc
Confidence            567899999997554323344556689999999998875443       45556666666787756689999995

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.69  E-value=0.032  Score=42.05  Aligned_cols=38  Identities=24%  Similarity=0.248  Sum_probs=32.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +..+.++ +..|+||||++..++..+.. .|.+++.++..
T Consensus        36 g~~~~l~-G~~G~GKTtL~~~i~~~~~~-~g~~~~~~~~~   73 (149)
T 2kjq_A           36 GQFIYVW-GEEGAGKSHLLQAWVAQALE-AGKNAAYIDAA   73 (149)
T ss_dssp             CSEEEEE-SSSTTTTCHHHHHHHHHHHT-TTCCEEEEETT
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHHHh-cCCcEEEEcHH
Confidence            4667775 77999999999999999988 89888888654

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=94.67  E-value=0.017  Score=44.57  Aligned_cols=35  Identities=23%  Similarity=0.223  Sum_probs=24.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +++| +.++-.|+||||++..|+..+    +...+.+|.|
T Consensus         3 ~~~i-~l~G~~GsGKST~a~~La~~l----~~~~~~~~~D   37 (178)
T 1qhx_A            3 TRMI-ILNGGSSAGKSGIVRCLQSVL----PEPWLAFGVD   37 (178)
T ss_dssp             CCEE-EEECCTTSSHHHHHHHHHHHS----SSCEEEEEHH
T ss_pred             ceEE-EEECCCCCCHHHHHHHHHHhc----CCCeEEeccc
Confidence            3444 446889999999999776544    4455666666

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=94.66  E-value=0.079  Score=40.91  Aligned_cols=66  Identities=18%  Similarity=0.129  Sum_probs=43.7

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+..    .+.++ .+|+|+.|.
T Consensus        69 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  139 (195)
T 3bc1_A           69 RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDI-VLCGNKSDL  139 (195)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCE-EEEEECTTC
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            5789999999654332333445667899999888654 455555555555543    34455 599999985

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.60  E-value=0.089  Score=40.39  Aligned_cols=87  Identities=15%  Similarity=0.110  Sum_probs=46.1

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCCc
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +.+|.|+.|.....     
T Consensus        56 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~-----  129 (183)
T 2fu5_C           56 RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVE-KMILGNKCDVNDKR-----  129 (183)
T ss_dssp             EEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEEC--CCSCC-----
T ss_pred             EEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECccCCccC-----
Confidence            4779999999643322233344557899999888765 3566666665555542   344 45999999853211     


Q ss_pred             cccCCchhhHHHHHhCCc
Q 022525          215 FIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~  232 (295)
                       ........++.+.++.+
T Consensus       130 -~v~~~~~~~~~~~~~~~  146 (183)
T 2fu5_C          130 -QVSKERGEKLALDYGIK  146 (183)
T ss_dssp             -CSCHHHHHHHHHHHTCE
T ss_pred             -cCCHHHHHHHHHHcCCe
Confidence             11123455666666643

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=94.55  E-value=0.022  Score=43.61  Aligned_cols=33  Identities=33%  Similarity=0.502  Sum_probs=24.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +++|.+. +-.|+||||++..|+..|    |..  ++|.|
T Consensus         2 ~~~I~l~-G~~GsGKsT~a~~La~~l----g~~--~id~d   34 (173)
T 1e6c_A            2 TEPIFMV-GARGCGMTTVGRELARAL----GYE--FVDTD   34 (173)
T ss_dssp             CCCEEEE-SCTTSSHHHHHHHHHHHH----TCE--EEEHH
T ss_pred             CceEEEE-CCCCCCHHHHHHHHHHHh----CCc--EEccc
Confidence            4667775 678999999999887655    333  56776

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=94.52  E-value=0.058  Score=48.26  Aligned_cols=68  Identities=12%  Similarity=0.059  Sum_probs=49.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+|+|++........+.+.+..+...+.+.+.+|+|+.|.
T Consensus       102 ~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~~~~~iIvviNK~Dl  169 (434)
T 1zun_B          102 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDL  169 (434)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTT
T ss_pred             CCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEcCcC
Confidence            45779999999754422233445668999999999887655666666667777777766699999984

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.48  E-value=0.13  Score=39.12  Aligned_cols=67  Identities=12%  Similarity=0.055  Sum_probs=40.3

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~~  206 (295)
                      .+.+.|+|+|+...........+..+|.++++..... .++..+...+..+..   .+.+ +.+|+|+.|..
T Consensus        59 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~  129 (180)
T 2g6b_A           59 KVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVA-LMLLGNKVDSA  129 (180)
T ss_dssp             EEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECCSTT
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECcccC
Confidence            4679999999754332333444567899999888765 345555555555543   3344 45999999953

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=94.43  E-value=0.089  Score=41.20  Aligned_cols=86  Identities=13%  Similarity=0.154  Sum_probs=48.9

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCCc
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      .+.+.|+|+|+...........+..+|.++++..... .++..+...+..+...   +.+ +.+|.|+.|.....     
T Consensus        81 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ilv~nK~Dl~~~~-----  154 (199)
T 3l0i_B           81 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVN-KLLVGNKCDLTTKK-----  154 (199)
T ss_dssp             EEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSE-EEEC-CCSSCC--C-----
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCC-EEEEEECccCCccc-----
Confidence            4679999999754432333445567899999987654 4566666666666654   334 45899999853211     


Q ss_pred             cccCCchhhHHHHHhCC
Q 022525          215 FIFGKGGTHRTAAEMGL  231 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~  231 (295)
                       .......+++.+.++.
T Consensus       155 -~v~~~~~~~~~~~~~~  170 (199)
T 3l0i_B          155 -VVDYTTAKEFADSLGI  170 (199)
T ss_dssp             -CCCSCC-CHHHHTTTC
T ss_pred             -cCCHHHHHHHHHHcCC
Confidence             1112335556665554

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.39  E-value=0.049  Score=46.36  Aligned_cols=37  Identities=24%  Similarity=0.262  Sum_probs=31.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D   70 (295)
                      +-+.++ +..|+|||+++..+|..+. . .|.+|+.+.+.
T Consensus       153 ~~lll~-G~~GtGKT~La~aia~~~~~~-~g~~v~~~~~~  190 (308)
T 2qgz_A          153 KGLYLY-GDMGIGKSYLLAAMAHELSEK-KGVSTTLLHFP  190 (308)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHHHHHHH-SCCCEEEEEHH
T ss_pred             ceEEEE-CCCCCCHHHHHHHHHHHHHHh-cCCcEEEEEHH
Confidence            455554 7789999999999999999 8 99999988664

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.35  E-value=0.052  Score=46.19  Aligned_cols=41  Identities=37%  Similarity=0.422  Sum_probs=33.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH--HhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA--SKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la--~~~g~~VlliD~D~~~   73 (295)
                      +.+|+++ +..|+||||++..|+..+.  - .+.+|.+|++|...
T Consensus        80 g~iigI~-G~~GsGKSTl~~~L~~~l~~~~-~~G~i~vi~~d~~~  122 (308)
T 1sq5_A           80 PYIISIA-GSVAVGKSTTARVLQALLSRWP-EHRRVELITTDGFL  122 (308)
T ss_dssp             CEEEEEE-ECTTSSHHHHHHHHHHHHTTST-TCCCEEEEEGGGGB
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHHhhCC-CCCeEEEEecCCcc
Confidence            6788886 7889999999999998886  4 45679999988654

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=94.27  E-value=0.12  Score=40.29  Aligned_cols=67  Identities=12%  Similarity=0.064  Sum_probs=44.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+...+..+...   +.+ +.+|+|+.|.
T Consensus        70 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iiiv~NK~Dl  140 (192)
T 2fg5_A           70 ELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIV-MAIAGNKCDL  140 (192)
T ss_dssp             SEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCE-EEEEEECGGG
T ss_pred             EEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECccc
Confidence            45789999999754332333445667899988887654 4566666666655543   344 4599999985

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.27  E-value=0.15  Score=42.19  Aligned_cols=68  Identities=16%  Similarity=0.147  Sum_probs=35.7

Q ss_pred             CCccEEEEcCCCCCCccch---hhhhhc------cCceEEEeeCCCcchHHHH-HHHHHHHhcC---CC-CeeeEEeccc
Q 022525          138 GNLDILVIDMPPGTGDAQL---TTTQTL------QLSGALIVSTPQDVALIDA-RKGITMFSKV---QV-PILGLVENMS  203 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~---~~~~l~------~ad~viiv~~~~~~s~~~~-~~~~~~l~~~---~~-~~~~~ViN~~  203 (295)
                      ....+.|+|||+..+....   ....+.      .+|.+++|...+...+... ...++.+...   +. ..+.+|+|+.
T Consensus        82 ~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~  161 (262)
T 3def_A           82 GGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHA  161 (262)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECT
T ss_pred             CCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCc
Confidence            4567999999964321111   111111      5788888865544323222 2334444332   11 2445899999


Q ss_pred             cC
Q 022525          204 CF  205 (295)
Q Consensus       204 ~~  205 (295)
                      +.
T Consensus       162 Dl  163 (262)
T 3def_A          162 QF  163 (262)
T ss_dssp             TC
T ss_pred             cc
Confidence            85

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.27  E-value=0.065  Score=45.90  Aligned_cols=42  Identities=31%  Similarity=0.328  Sum_probs=33.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh-CCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK-CQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~-~g~~VlliD~D~~~   73 (295)
                      +.+|+|. +..|+||||++..|+..+... .+.+|.+|..|...
T Consensus        92 p~iigI~-GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f~  134 (321)
T 3tqc_A           92 PYIIGIA-GSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGFL  134 (321)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecccc
Confidence            4677775 888999999999999888740 25689999998654

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.25  E-value=0.21  Score=37.74  Aligned_cols=67  Identities=18%  Similarity=0.104  Sum_probs=40.2

Q ss_pred             CccEEEEcCCCCCC--ccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC----CCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTG--DAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV----QVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~--~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~  206 (295)
                      .+.+.++|+|+...  ........+..+|.++++...+ ..++..+...+..+.+.    +.++ .+|.|+.|..
T Consensus        51 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~pi-ilv~NK~Dl~  124 (175)
T 2nzj_A           51 DTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPI-ILVGNKADLA  124 (175)
T ss_dssp             EEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCE-EEEEECTTCT
T ss_pred             EEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCE-EEEEEChhhc
Confidence            46789999996433  1122233344578888877665 45666666666666543    4555 4999999853

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=94.24  E-value=0.1  Score=41.34  Aligned_cols=88  Identities=14%  Similarity=0.120  Sum_probs=50.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCCc
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      .+.+.|+|+|+...........+..+|.+|+|..... .++..+...++.+...   ....+.+|+|+.|....      
T Consensus        83 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~------  156 (217)
T 2f7s_A           83 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ------  156 (217)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGG------
T ss_pred             eEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccc------
Confidence            5779999999643322233445567899999888654 3455555444444331   12345599999985311      


Q ss_pred             cccCCchhhHHHHHhCCc
Q 022525          215 FIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~  232 (295)
                      ........+++.+.++.+
T Consensus       157 ~~v~~~~~~~~~~~~~~~  174 (217)
T 2f7s_A          157 REVNERQARELADKYGIP  174 (217)
T ss_dssp             CCSCHHHHHHHHHHTTCC
T ss_pred             cccCHHHHHHHHHHCCCc
Confidence            111123455666666543

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=94.14  E-value=0.062  Score=50.27  Aligned_cols=40  Identities=25%  Similarity=0.283  Sum_probs=33.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++.+|.|+ +-.|+||||++..|+..|.+ +|.+++.+|.|.
T Consensus        51 ~g~lIvLt-GlsGSGKSTlAr~La~~L~~-~G~~~v~lDgD~   90 (630)
T 1x6v_B           51 RGCTVWLT-GLSGAGKTTVSMALEEYLVC-HGIPCYTLDGDN   90 (630)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHH-TTCCEEEESHHH
T ss_pred             CCCEEEEE-eCCCCCHHHHHHHHHHHHHh-cCCeEEEechHH
Confidence            35666664 77899999999999999999 899998888664

>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative formyltetrahydrofolate synthetase, structural genomics; HET: MSE; 1.85A {Thermotoga maritima} SCOP: c.37.1.0

Probab=94.07  E-value=0.023  Score=50.59  Aligned_cols=52  Identities=23%  Similarity=0.290  Sum_probs=41.6

Q ss_pred             CCeEEEEee---CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC
Q 022525           30 VKDVIAVAS---GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK   85 (295)
Q Consensus        30 ~~~vI~i~s---~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~   85 (295)
                      .+|.|.|++   .+-|.||||++..|+.+|.+ .|+++.+.   ..+|++--.||++..
T Consensus        42 ~GklIlVTaItPTPaGEGKtTttiGL~~aL~~-lgk~~~~~---lRePSlGP~FGiKGG   96 (543)
T 3do6_A           42 DGKLILVTAVTPTPAGEGKTTTSIGLSMSLNR-IGKKSIVT---LREPSLGPTLGLKGG   96 (543)
T ss_dssp             CCEEEEEEESSCCTTCCCHHHHHHHHHHHHHH-TTCCEEEE---ECCCCHHHHHHSCCS
T ss_pred             CCeEEEEEecCCCCCCCCccchHHHHHHHHHh-cCCeeEEE---EecCCCCCcCCcccc
Confidence            467776654   57899999999999999999 99998654   456777777888764

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=94.06  E-value=0.17  Score=39.59  Aligned_cols=88  Identities=11%  Similarity=0.074  Sum_probs=53.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+.|+|+|+...........+..+|.+|++..... .++..+...+..+..   .+.++ .+|+|+.+.....    
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ilv~nK~Dl~~~~----  129 (203)
T 1zbd_A           55 KRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQV-LLVGNKCDMEDER----  129 (203)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEE-EEEEECTTCTTSC----
T ss_pred             eEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCE-EEEEECcccCccc----
Confidence            35779999999644322333444567899998888754 355666665555554   24444 5999999853211    


Q ss_pred             ccccCCchhhHHHHHhCCc
Q 022525          214 SFIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~  232 (295)
                        ........++.+.++.+
T Consensus       130 --~~~~~~~~~~~~~~~~~  146 (203)
T 1zbd_A          130 --VVSSERGRQLADHLGFE  146 (203)
T ss_dssp             --CSCHHHHHHHHHHHTCE
T ss_pred             --ccCHHHHHHHHHHCCCe
Confidence              11223456666666654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=94.04  E-value=0.65  Score=40.17  Aligned_cols=66  Identities=12%  Similarity=0.041  Sum_probs=39.8

Q ss_pred             CccEEEEcCCCCCCccch--------hh-hhhccCceEEEeeCCCcc---hHHHHHHHHHHHhc-C-CCCeeeEEecccc
Q 022525          139 NLDILVIDMPPGTGDAQL--------TT-TQTLQLSGALIVSTPQDV---ALIDARKGITMFSK-V-QVPILGLVENMSC  204 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~--------~~-~~l~~ad~viiv~~~~~~---s~~~~~~~~~~l~~-~-~~~~~~~ViN~~~  204 (295)
                      .+++.++|||+.......        .. .....+|.+++|.+.+..   +.......+..+.. . +.++ .+|.|+.|
T Consensus       213 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~pi-ilV~NK~D  291 (357)
T 2e87_A          213 YFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPF-LVVINKID  291 (357)
T ss_dssp             TEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCE-EEEECCTT
T ss_pred             CceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCE-EEEEECcc
Confidence            456899999965432111        01 112247889988885543   45665566665544 2 4454 49999988


Q ss_pred             C
Q 022525          205 F  205 (295)
Q Consensus       205 ~  205 (295)
                      .
T Consensus       292 l  292 (357)
T 2e87_A          292 V  292 (357)
T ss_dssp             T
T ss_pred             c
Confidence            3

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=94.03  E-value=0.45  Score=39.42  Aligned_cols=40  Identities=10%  Similarity=-0.004  Sum_probs=23.3

Q ss_pred             CceEEEeeCCCcch-HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          164 LSGALIVSTPQDVA-LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       164 ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +|.+++++.+.... ...-...++.+.. +.+++ +|+|+.|.
T Consensus       116 ~~~~l~~i~~~~~~~~~~d~~~l~~l~~-~~pvi-~V~nK~D~  156 (274)
T 3t5d_A          116 VQCCLYFIAPSGHGLKPLDIEFMKRLHE-KVNII-PLIAKADT  156 (274)
T ss_dssp             CCEEEEEECSCCSSCCHHHHHHHHHHTT-TSCEE-EEESSGGG
T ss_pred             eeEEEEEecCCCCCCCHHHHHHHHHHhc-cCCEE-EEEeccCC
Confidence            55666666555422 2233445566655 55554 89999884

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.01  E-value=0.031  Score=43.09  Aligned_cols=34  Identities=41%  Similarity=0.387  Sum_probs=23.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      |+.|++. +..|+||||++..||..+.-      .++|.|.
T Consensus         4 m~~i~i~-G~~GsGKsTla~~La~~l~~------~~~d~d~   37 (175)
T 1via_A            4 AKNIVFI-GFMGSGKSTLARALAKDLDL------VFLDSDF   37 (175)
T ss_dssp             -CCEEEE-CCTTSCHHHHHHHHHHHHTC------EEEEHHH
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHcCC------CEEcccH
Confidence            4556664 88999999999988765532      4567663

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.00  E-value=0.09  Score=40.86  Aligned_cols=34  Identities=35%  Similarity=0.351  Sum_probs=27.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +|++. +-.|+||||++..|+..+.. .|..++-.|
T Consensus         2 ~I~l~-G~~GsGKsT~~~~L~~~l~~-~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFE-GIDGSGKTTQAKKLYEYLKQ-KGYFVSLYR   35 (195)
T ss_dssp             EEEEE-CSTTSCHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHHHH-CCCeEEEEe
Confidence            35554 77899999999999999988 898876443

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=93.97  E-value=0.079  Score=47.42  Aligned_cols=67  Identities=6%  Similarity=-0.004  Sum_probs=41.1

Q ss_pred             CccEEEEcCCCCCCcc-------c----hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDA-------Q----LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~-------~----~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      +..+.|+|||+.....       .    .....+..+|.++++.+..........+.+..+...+.++ .+|+|+.|..
T Consensus       222 ~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~~~~~~~~~~~~~~i-iiv~NK~Dl~  299 (436)
T 2hjg_A          222 QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAV-VIVVNKWDAV  299 (436)
T ss_dssp             TEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEE-EEEEECGGGS
T ss_pred             CeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHHHHHHHHHHHcCCcE-EEEEECccCC
Confidence            4458899998531100       1    1223456789999888876643333345566666666665 4999999853

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=93.97  E-value=0.036  Score=46.16  Aligned_cols=68  Identities=9%  Similarity=0.024  Sum_probs=36.3

Q ss_pred             CCccEEEEcCCCCCCccchh---hhh------hccCceEEEeeCCCcchHHH-HHHHHHHHhcC-CC---CeeeEEeccc
Q 022525          138 GNLDILVIDMPPGTGDAQLT---TTQ------TLQLSGALIVSTPQDVALID-ARKGITMFSKV-QV---PILGLVENMS  203 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~---~~~------l~~ad~viiv~~~~~~s~~~-~~~~~~~l~~~-~~---~~~~~ViN~~  203 (295)
                      ..+.+.|+|||+........   ...      ...+|.+++|...+..++.. ....++.+... +.   ..+.+|+|+.
T Consensus        85 ~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~  164 (270)
T 1h65_A           85 AGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHA  164 (270)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECC
T ss_pred             CCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECc
Confidence            45779999999642211110   011      12578898885544433322 22444444332 22   2345999999


Q ss_pred             cC
Q 022525          204 CF  205 (295)
Q Consensus       204 ~~  205 (295)
                      +.
T Consensus       165 Dl  166 (270)
T 1h65_A          165 QF  166 (270)
T ss_dssp             SC
T ss_pred             cc
Confidence            84

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=93.95  E-value=0.046  Score=49.43  Aligned_cols=68  Identities=13%  Similarity=0.048  Sum_probs=42.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH-------HHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL-------IDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|||+...........+..+|.+|+|++.....+       ..+.+.+..+...+.+.+.+++|+.|.
T Consensus       119 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl  193 (467)
T 1r5b_A          119 EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDE  193 (467)
T ss_dssp             SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTS
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccC
Confidence            45779999999754432333444567999999998876532       245555666666788755699999995

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=93.87  E-value=0.025  Score=43.94  Aligned_cols=33  Identities=45%  Similarity=0.517  Sum_probs=23.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++|.+ .+-.|+||||++..||..+    |..  ++|.|.
T Consensus         3 ~~I~l-~G~~GsGKsT~a~~La~~l----g~~--~id~D~   35 (184)
T 2iyv_A            3 PKAVL-VGLPGSGKSTIGRRLAKAL----GVG--LLDTDV   35 (184)
T ss_dssp             CSEEE-ECSTTSSHHHHHHHHHHHH----TCC--EEEHHH
T ss_pred             CeEEE-ECCCCCCHHHHHHHHHHHc----CCC--EEeCch
Confidence            45555 4888999999999887655    434  567774

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=93.87  E-value=0.063  Score=43.05  Aligned_cols=36  Identities=17%  Similarity=0.050  Sum_probs=29.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +.+..+ .+.-|+||||....++..+.. +|.+|+++-
T Consensus        28 G~I~vi-tG~M~sGKTT~Llr~~~r~~~-~g~kvli~k   63 (219)
T 3e2i_A           28 GWIECI-TGSMFSGKSEELIRRLRRGIY-AKQKVVVFK   63 (219)
T ss_dssp             CEEEEE-EECTTSCHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             ceEEEE-ECCCCCCHHHHHHHHHHHHHH-cCCceEEEE
Confidence            455555 566899999999999999988 999999994

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=93.87  E-value=0.17  Score=41.72  Aligned_cols=90  Identities=10%  Similarity=0.010  Sum_probs=56.4

Q ss_pred             CCccEEEEcCCCCCCccc------hhhhhh--ccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQ------LTTTQT--LQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPH  209 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~------~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~  209 (295)
                      ..+.+.|+|+|+..+...      +....+  ..+|.+++|.+....  .........+...+.+++ +|+||.|.....
T Consensus        50 ~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~--~~~~~~~~~l~~~~~pvi-lv~NK~Dl~~~~  126 (258)
T 3a1s_A           50 KGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNP--EQSLYLLLEILEMEKKVI-LAMTAIDEAKKT  126 (258)
T ss_dssp             TTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSC--HHHHHHHHHHHTTTCCEE-EEEECHHHHHHT
T ss_pred             CCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCch--hhHHHHHHHHHhcCCCEE-EEEECcCCCCcc
Confidence            457899999997544221      112222  368999999887653  333445566666777765 999999842111


Q ss_pred             CCCCccccCCchhhHHHHHhCCcEEEee
Q 022525          210 CSEPSFIFGKGGTHRTAAEMGLKVIGEI  237 (295)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~g~~~~~~I  237 (295)
                            .. ....+++.+.+|.+++.+-
T Consensus       127 ------~i-~~~~~~l~~~lg~~vi~~S  147 (258)
T 3a1s_A          127 ------GM-KIDRYELQKHLGIPVVFTS  147 (258)
T ss_dssp             ------TC-CBCHHHHHHHHCSCEEECC
T ss_pred             ------ch-HHHHHHHHHHcCCCEEEEE
Confidence                  01 1236788888898877533

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=93.86  E-value=0.05  Score=45.92  Aligned_cols=40  Identities=25%  Similarity=0.168  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC--CeEEEE-EeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ--LKVGLL-DADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g--~~Vlli-D~D~~   72 (295)
                      +.+|+|. +..|+||||++..|+..+.. .|  .++..+ ..|..
T Consensus        31 ~~ii~I~-G~sGsGKSTla~~L~~~l~~-~g~~~~~~~iv~~D~f   73 (290)
T 1odf_A           31 PLFIFFS-GPQGSGKSFTSIQIYNHLME-KYGGEKSIGYASIDDF   73 (290)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHH-HHGGGSCEEEEEGGGG
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhhh-cCCCCceEEEeccccc
Confidence            5777775 88899999999999999987 55  444444 77754

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.79  E-value=0.078  Score=48.64  Aligned_cols=40  Identities=15%  Similarity=0.143  Sum_probs=34.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++.+.++.+-.|+||||++..||..|.. .+.++.+++.|-
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~-~~~d~~v~s~D~   73 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNW-IGVPTKVFNVGE   73 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh-cCCCeEEecccH
Confidence            4555566789999999999999999998 899999998884

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=93.78  E-value=0.073  Score=49.41  Aligned_cols=39  Identities=31%  Similarity=0.245  Sum_probs=32.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC-CeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ-LKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g-~~VlliD~D~   71 (295)
                      +.+|.|. +-.|+||||++..|+..|.. .| .++.++|.|.
T Consensus       396 ~~~I~l~-GlsGSGKSTiA~~La~~L~~-~G~~~~~~lD~D~  435 (573)
T 1m8p_A          396 GFTIFLT-GYMNSGKDAIARALQVTLNQ-QGGRSVSLLLGDT  435 (573)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHH-HCSSCEEEEEHHH
T ss_pred             ceEEEee-cCCCCCHHHHHHHHHHHhcc-cCCceEEEECcHH
Confidence            5666665 67779999999999999998 78 8999998774

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=93.76  E-value=0.078  Score=44.26  Aligned_cols=39  Identities=36%  Similarity=0.339  Sum_probs=29.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC----------CCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC----------QLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~----------g~~VlliD~D~   71 (295)
                      +.++.++ +..|+||||++..++..++. .          +.+|++++...
T Consensus        30 G~i~~i~-G~~GsGKTtl~~~l~~~~~~-g~~~~g~~~~~~~~v~~~~~e~   78 (279)
T 1nlf_A           30 GTVGALV-SPGGAGKSMLALQLAAQIAG-GPDLLEVGELPTGPVIYLPAED   78 (279)
T ss_dssp             TSEEEEE-ESTTSSHHHHHHHHHHHHHT-CCCTTCCCCCCCCCEEEEESSS
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHHhc-CCCcCCCccCCCccEEEEECCC
Confidence            4666665 88999999999999997765 3          35677776553

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=93.73  E-value=0.1  Score=41.27  Aligned_cols=36  Identities=28%  Similarity=0.235  Sum_probs=29.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +++|++. +--|+||||++..|+..+.. .+.++.++.
T Consensus        10 ~~~I~l~-G~~GsGKST~~~~L~~~l~~-~~~~~~~~~   45 (212)
T 2wwf_A           10 GKFIVFE-GLDRSGKSTQSKLLVEYLKN-NNVEVKHLY   45 (212)
T ss_dssp             SCEEEEE-ESTTSSHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHHHH-cCCcEEEEe
Confidence            4667775 66789999999999999998 888885443

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=93.62  E-value=0.092  Score=41.62  Aligned_cols=35  Identities=31%  Similarity=0.407  Sum_probs=29.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +++|++. +-.|+||||++..|+..|.. .|.+|..+
T Consensus         9 ~~~I~l~-G~~GsGKsT~~~~L~~~l~~-~~~~v~~~   43 (215)
T 1nn5_A            9 GALIVLE-GVDRAGKSTQSRKLVEALCA-AGHRAELL   43 (215)
T ss_dssp             CCEEEEE-ESTTSSHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCcEEEe
Confidence            4667665 66899999999999999998 89888544

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=93.61  E-value=0.051  Score=42.25  Aligned_cols=34  Identities=29%  Similarity=0.350  Sum_probs=24.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++++|++. +-.|+||||++..|+..+    |.  ..+|.|
T Consensus         5 ~~~~I~l~-G~~GsGKsT~~~~L~~~l----~~--~~i~~d   38 (194)
T 1qf9_A            5 KPNVVFVL-GGPGSGKGTQCANIVRDF----GW--VHLSAG   38 (194)
T ss_dssp             CCEEEEEE-ESTTSSHHHHHHHHHHHH----CC--EEEEHH
T ss_pred             cCcEEEEE-CCCCCCHHHHHHHHHHHh----CC--eEeeHH
Confidence            35666665 778999999998777654    43  456765

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=93.59  E-value=0.12  Score=41.50  Aligned_cols=36  Identities=31%  Similarity=0.331  Sum_probs=30.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      ++.|+|. +--|+||||.+..|+..|.. .|.+|....
T Consensus         6 g~~i~~e-G~~gsGKsT~~~~l~~~l~~-~~~~v~~~~   41 (213)
T 4edh_A            6 GLFVTLE-GPEGAGKSTNRDYLAERLRE-RGIEVQLTR   41 (213)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHT-TTCCEEEEE
T ss_pred             ceEEEEE-cCCCCCHHHHHHHHHHHHHH-cCCCccccc
Confidence            5667664 78899999999999999999 999997653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.57  E-value=0.053  Score=44.72  Aligned_cols=33  Identities=18%  Similarity=0.187  Sum_probs=23.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++|+| .+..|+||||++..||..+    |.  .+|+.|.
T Consensus         2 ~li~I-~G~~GSGKSTla~~La~~~----~~--~~i~~D~   34 (253)
T 2ze6_A            2 LLHLI-YGPTCSGKTDMAIQIAQET----GW--PVVALDR   34 (253)
T ss_dssp             EEEEE-ECCTTSSHHHHHHHHHHHH----CC--CEEECCS
T ss_pred             eEEEE-ECCCCcCHHHHHHHHHhcC----CC--eEEeccH
Confidence            55555 5889999999999887644    33  3567774

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=93.54  E-value=0.038  Score=42.35  Aligned_cols=33  Identities=39%  Similarity=0.511  Sum_probs=23.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +++|+++ +..|+||||++..||..+    |.  ..+|.|
T Consensus         4 ~~~i~l~-G~~GsGKSTl~~~La~~l----~~--~~id~d   36 (173)
T 1kag_A            4 KRNIFLV-GPMGAGKSTIGRQLAQQL----NM--EFYDSD   36 (173)
T ss_dssp             CCCEEEE-CCTTSCHHHHHHHHHHHT----TC--EEEEHH
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHh----CC--CEEecc
Confidence            4567665 778999999988776543    43  456766

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.53  E-value=0.097  Score=41.32  Aligned_cols=34  Identities=32%  Similarity=0.263  Sum_probs=26.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +++|+| .+-.|+||||++..|+..+.. .| +|+..
T Consensus         4 ~~~I~i-~G~~GsGKsT~~~~L~~~l~~-~g-~~~~~   37 (213)
T 2plr_A            4 GVLIAF-EGIDGSGKSSQATLLKDWIEL-KR-DVYLT   37 (213)
T ss_dssp             CEEEEE-ECCTTSSHHHHHHHHHHHHTT-TS-CEEEE
T ss_pred             CeEEEE-EcCCCCCHHHHHHHHHHHHhh-cC-CEEEe
Confidence            356666 477899999999999999987 77 76443

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=93.51  E-value=0.081  Score=49.34  Aligned_cols=67  Identities=13%  Similarity=0.072  Sum_probs=47.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|.+.|+|||+..+........+..+|.+|+|++........+...+..+...+.+++ +|+|+.|.
T Consensus        69 ~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~~ipiI-vViNKiDl  135 (599)
T 3cb4_D           69 ETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVV-PVLNKIDL  135 (599)
T ss_dssp             CEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHHTTCEEE-EEEECTTS
T ss_pred             CeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEE-EeeeccCc
Confidence            45889999999766543444556778999999998766433344444555555677754 99999984

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=93.50  E-value=0.12  Score=46.82  Aligned_cols=68  Identities=12%  Similarity=0.002  Sum_probs=48.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-------HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-------LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.++|+|||+...........+..+|.+|++++.+...       .......+..+...+.+.+.+|+|+.|.
T Consensus       109 ~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl  183 (483)
T 3p26_A          109 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDN  183 (483)
T ss_dssp             SSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             CCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCc
Confidence            5688999999965443334455567899999999887642       2355566666666777656699999985

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.49  E-value=0.059  Score=46.13  Aligned_cols=36  Identities=31%  Similarity=0.369  Sum_probs=25.8

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      |.++|.+ .+..|+||||++..||..+    +  ..+||+|..
T Consensus         4 m~~~i~i-~GptGsGKTtla~~La~~l----~--~~iis~Ds~   39 (323)
T 3crm_A            4 LPPAIFL-MGPTAAGKTDLAMALADAL----P--CELISVDSA   39 (323)
T ss_dssp             CCEEEEE-ECCTTSCHHHHHHHHHHHS----C--EEEEEECTT
T ss_pred             CCcEEEE-ECCCCCCHHHHHHHHHHHc----C--CcEEeccch
Confidence            3455555 5889999999999876543    3  467888854

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=93.45  E-value=0.091  Score=40.29  Aligned_cols=34  Identities=32%  Similarity=0.519  Sum_probs=25.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|+++ +..|+||||++..|+..+    |.  ..+|.|.
T Consensus         8 g~~i~l~-G~~GsGKSTl~~~l~~~~----g~--~~i~~d~   41 (175)
T 1knq_A            8 HHIYVLM-GVSGSGKSAVASEVAHQL----HA--AFLDGDF   41 (175)
T ss_dssp             SEEEEEE-CSTTSCHHHHHHHHHHHH----TC--EEEEGGG
T ss_pred             CcEEEEE-cCCCCCHHHHHHHHHHhh----Cc--EEEeCcc
Confidence            5777775 778999999999887655    32  4677764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=93.32  E-value=0.051  Score=42.87  Aligned_cols=34  Identities=29%  Similarity=0.343  Sum_probs=24.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +++|+++ +..|+||||++..||..+    |..  .+|.|.
T Consensus        25 ~~~i~l~-G~~GsGKsTl~~~La~~l----~~~--~i~~d~   58 (199)
T 3vaa_A           25 MVRIFLT-GYMGAGKTTLGKAFARKL----NVP--FIDLDW   58 (199)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHH----TCC--EEEHHH
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHc----CCC--EEcchH
Confidence            4667665 889999999999888766    333  456663

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=93.29  E-value=0.17  Score=38.33  Aligned_cols=66  Identities=17%  Similarity=0.081  Sum_probs=42.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++..... .++..+...+..+..   .+.++ .+|+|+.|.
T Consensus        62 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ilv~nK~Dl  131 (179)
T 2y8e_A           62 TVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVII-MLVGNKTDL  131 (179)
T ss_dssp             EEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEE-EEEEECGGG
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcE-EEEEECCcc
Confidence            4679999999643322333344567899999888754 355555555554443   24444 599999985

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=93.27  E-value=0.15  Score=39.87  Aligned_cols=87  Identities=9%  Similarity=0.005  Sum_probs=49.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc------CCCCeeeEEeccccCCCCCCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK------VQVPILGLVENMSCFICPHCS  211 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~------~~~~~~~~ViN~~~~~~~~~~  211 (295)
                      .+.+.|+|+|+...........+..+|.++++..... .++..+...+..+..      .+.+ +.+|+|+.|....   
T Consensus        72 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~Dl~~~---  147 (208)
T 2yc2_C           72 SVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLR-AVLVANKTDLPPQ---  147 (208)
T ss_dssp             EEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCE-EEEEEECC--------
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCc-EEEEEECcccchh---
Confidence            5789999999643221223334556899988888754 355666666666654      2344 4599999985320   


Q ss_pred             CCccccCCchhhHHHHHhCC
Q 022525          212 EPSFIFGKGGTHRTAAEMGL  231 (295)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~g~  231 (295)
                        ..........++.+.++.
T Consensus       148 --~~~v~~~~~~~~~~~~~~  165 (208)
T 2yc2_C          148 --RHQVRLDMAQDWATTNTL  165 (208)
T ss_dssp             ----CCCHHHHHHHHHHTTC
T ss_pred             --hccCCHHHHHHHHHHcCC
Confidence              011112345666666663

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=93.24  E-value=0.092  Score=44.77  Aligned_cols=37  Identities=22%  Similarity=0.175  Sum_probs=31.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ..+.++ +..|+||||++..++..+.. .+.+++.+++.
T Consensus        38 ~~lll~-G~~GtGKT~la~~i~~~~~~-~~~~~~~i~~~   74 (324)
T 1l8q_A           38 NPIFIY-GSVGTGKTHLLQAAGNEAKK-RGYRVIYSSAD   74 (324)
T ss_dssp             SSEEEE-CSSSSSHHHHHHHHHHHHHH-TTCCEEEEEHH
T ss_pred             CeEEEE-CCCCCcHHHHHHHHHHHHHH-CCCEEEEEEHH
Confidence            455554 67899999999999999999 89999999865

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=93.19  E-value=0.12  Score=39.76  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=21.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..+.+ .+..|+|||+++..++..+..
T Consensus        44 ~~~ll-~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           44 NNPVL-IGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             CEEEE-ECCTTSCHHHHHHHHHHHHHH
T ss_pred             CceEE-ECCCCCCHHHHHHHHHHHHHh
Confidence            44544 588899999999999998876

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.17  E-value=0.18  Score=38.87  Aligned_cols=67  Identities=13%  Similarity=-0.057  Sum_probs=35.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc--hHHHHHHHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV--ALIDARKGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~--s~~~~~~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+++...........+..+|.++++...+..  ++..+...+..+..  .+.++ .+|.|+.|.
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  124 (184)
T 2zej_A           54 RDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPV-ILVGTHLDV  124 (184)
T ss_dssp             --CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCEE-EEEEECGGG
T ss_pred             CceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCcE-EEEEECCCc
Confidence            456788999985221111112223457877777665442  45555554444433  24444 478899883

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=93.17  E-value=0.083  Score=45.68  Aligned_cols=41  Identities=17%  Similarity=0.130  Sum_probs=31.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~~   72 (295)
                      +.++.| .+..|+||||++.++|...+..     .|.+|++||++..
T Consensus       122 G~i~~I-~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~  167 (343)
T 1v5w_A          122 MAITEA-FGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENT  167 (343)
T ss_dssp             SEEEEE-ECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSC
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            345554 5888999999999999875431     2789999998864

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=93.16  E-value=0.41  Score=36.23  Aligned_cols=66  Identities=17%  Similarity=0.140  Sum_probs=42.2

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHH----hcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMF----SKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l----~~~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.++++...... ++..+...+..+    ...+.++ .+|+|+.|.
T Consensus        56 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  126 (181)
T 2fn4_A           56 PARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPV-VLVGNKADL  126 (181)
T ss_dssp             EEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCE-EEEEECGGG
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            46789999997543323334445578988888876653 555555544444    2235555 499999985

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.03  E-value=0.49  Score=35.30  Aligned_cols=68  Identities=18%  Similarity=0.143  Sum_probs=44.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+.. ++..+...+..+..   .+.+ +.+|.|+.|..
T Consensus        50 ~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~  121 (170)
T 1ek0_A           50 HTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDII-IALVGNKIDXL  121 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECGGGG
T ss_pred             EEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCc-EEEEEECCCcc
Confidence            346799999997543323344456678999998876553 56666555555543   2334 45999999854

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.02  E-value=0.058  Score=41.15  Aligned_cols=34  Identities=41%  Similarity=0.581  Sum_probs=24.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +++|++. +--|+||||++..||..|    |.++  +|+|.
T Consensus         7 ~~~i~l~-G~~GsGKSTva~~La~~l----g~~~--id~D~   40 (168)
T 1zuh_A            7 MQHLVLI-GFMGSGKSSLAQELGLAL----KLEV--LDTDM   40 (168)
T ss_dssp             -CEEEEE-SCTTSSHHHHHHHHHHHH----TCCE--EEHHH
T ss_pred             cceEEEE-CCCCCCHHHHHHHHHHHh----CCCE--EEChH
Confidence            5677775 778899999998776554    4444  67764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.01  E-value=0.067  Score=42.17  Aligned_cols=35  Identities=31%  Similarity=0.316  Sum_probs=24.9

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ..+++|+|. +-.|+||||++..|+..    .|.  ..||+|
T Consensus        13 ~~~~~I~l~-G~~GsGKsT~~~~L~~~----~g~--~~i~~d   47 (203)
T 1ukz_A           13 DQVSVIFVL-GGPGAGKGTQCEKLVKD----YSF--VHLSAG   47 (203)
T ss_dssp             TTCEEEEEE-CSTTSSHHHHHHHHHHH----SSC--EEEEHH
T ss_pred             CCCcEEEEE-CCCCCCHHHHHHHHHHH----cCc--eEEeHH
Confidence            345677775 78899999999877653    454  456766

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=92.99  E-value=0.37  Score=46.11  Aligned_cols=68  Identities=21%  Similarity=0.044  Sum_probs=41.4

Q ss_pred             CCccEEEEcCCCCCCcc--------------chhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEecc
Q 022525          138 GNLDILVIDMPPGTGDA--------------QLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENM  202 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~--------------~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~  202 (295)
                      ...+++++|||+-....              .+.......+|.+++|+..... ...+...+++.+...+.+.+ +|+|+
T Consensus       148 ~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~~g~pvI-lVlNK  226 (772)
T 3zvr_A          148 HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTI-GVITK  226 (772)
T ss_dssp             TCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCTTCSSEE-EEEEC
T ss_pred             CCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHhcCCCEE-EEEeC
Confidence            35679999999533310              0011111357888888766542 23344467777776777765 99999


Q ss_pred             ccCC
Q 022525          203 SCFI  206 (295)
Q Consensus       203 ~~~~  206 (295)
                      .|..
T Consensus       227 iDlv  230 (772)
T 3zvr_A          227 LDLM  230 (772)
T ss_dssp             TTSS
T ss_pred             cccC
Confidence            9853

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=92.92  E-value=0.066  Score=45.76  Aligned_cols=40  Identities=25%  Similarity=0.227  Sum_probs=30.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH------------HhCC----CeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA------------SKCQ----LKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la------------~~~g----~~VlliD~D~~   72 (295)
                      +.++.| .+..|+||||++.++|...+            . .|    .+|++||++..
T Consensus        98 g~i~~i-~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~-~gg~~~~~v~yi~~e~~  153 (322)
T 2i1q_A           98 QSVTEF-AGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVS-KGEVAQPKAVYIDTEGT  153 (322)
T ss_dssp             TEEEEE-EESTTSSHHHHHHHHHHHTTCGGGEECCTTTSC-TTTTSSEEEEEEESSSC
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHHhccccccccccccc-cCCCCCceEEEEECCCC
Confidence            355555 57799999999999998753            3 45    79999998864

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=92.78  E-value=0.11  Score=42.08  Aligned_cols=40  Identities=20%  Similarity=0.178  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~   71 (295)
                      +.++.++ +..|+||||++..++...+..     .+.+|+.||.+.
T Consensus        24 G~~~~i~-G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           24 GSITEMF-GEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             TSEEEEE-CCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CeEEEEE-CCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            4677775 789999999999999864430     167899998875

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=92.76  E-value=0.092  Score=39.92  Aligned_cols=33  Identities=24%  Similarity=0.320  Sum_probs=22.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++|++ .+-.|+||||++..|+..+    |..  .+|.|.
T Consensus         2 ~~i~l-~G~~GsGKsT~~~~L~~~l----~~~--~i~~d~   34 (173)
T 3kb2_A            2 TLIIL-EGPDCCFKSTVAAKLSKEL----KYP--IIKGSS   34 (173)
T ss_dssp             CEEEE-ECSSSSSHHHHHHHHHHHH----CCC--EEECCC
T ss_pred             eEEEE-ECCCCCCHHHHHHHHHHHh----CCe--eecCcc
Confidence            44555 5889999999999776544    434  466663

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.74  E-value=0.4  Score=36.31  Aligned_cols=88  Identities=13%  Similarity=0.088  Sum_probs=50.9

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC-CCeeeEEeccccCCCCCCCCCccc
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ-VPILGLVENMSCFICPHCSEPSFI  216 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~-~~~~~~ViN~~~~~~~~~~~~~~~  216 (295)
                      .+.+.|+|+|+...........+..+|.++++...+. .++..+...+..+.... ...+.+|+|+.|....      ..
T Consensus        57 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~------~~  130 (181)
T 3tw8_B           57 KVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPER------KV  130 (181)
T ss_dssp             EEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGG------CC
T ss_pred             EEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchh------cc
Confidence            3679999999743322333444567898888887654 45556555555554422 2334599999984311      11


Q ss_pred             cCCchhhHHHHHhCCc
Q 022525          217 FGKGGTHRTAAEMGLK  232 (295)
Q Consensus       217 ~~~~~~~~~~~~~g~~  232 (295)
                      ........+....+.+
T Consensus       131 ~~~~~~~~~~~~~~~~  146 (181)
T 3tw8_B          131 VETEDAYKFAGQMGIQ  146 (181)
T ss_dssp             SCHHHHHHHHHHHTCC
T ss_pred             cCHHHHHHHHHHcCCe
Confidence            1123355556666644

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=92.73  E-value=0.061  Score=45.29  Aligned_cols=36  Identities=22%  Similarity=0.260  Sum_probs=25.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ..+.++++-.|+||||++..|+..+    +.....||.|.
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~----~~~~~~Is~D~   68 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEET----QGNVIVIDNDT   68 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT----TTCCEEECTHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh----CCCeEEEechH
Confidence            4556667999999999999886543    22456777763

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=92.61  E-value=0.45  Score=36.55  Aligned_cols=68  Identities=13%  Similarity=0.013  Sum_probs=44.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+...........+..+|.+++|.+.+.. ++......+..+.+.   ....+.+|.|+.|.
T Consensus        58 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  129 (187)
T 1zj6_A           58 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  129 (187)
T ss_dssp             TTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCC
Confidence            357799999997543223334456679999999887654 677777776666542   22344599999984

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=92.61  E-value=0.077  Score=40.33  Aligned_cols=27  Identities=41%  Similarity=0.358  Sum_probs=20.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEE
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVG   65 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vl   65 (295)
                      +|++ .+..|+||||++..|    .+ .|..++
T Consensus         3 ~I~l-~G~~GsGKsT~a~~L----~~-~g~~~i   29 (179)
T 3lw7_A            3 VILI-TGMPGSGKSEFAKLL----KE-RGAKVI   29 (179)
T ss_dssp             EEEE-ECCTTSCHHHHHHHH----HH-TTCEEE
T ss_pred             EEEE-ECCCCCCHHHHHHHH----HH-CCCcEE
Confidence            4444 588999999999977    56 788764

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=92.57  E-value=0.11  Score=39.83  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=21.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..+ +..+..|+||||++..++..+..
T Consensus        44 ~~v-ll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           44 NNP-ILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CEE-EEESCGGGCHHHHHHHHHHHHHT
T ss_pred             Cce-EEECCCCCCHHHHHHHHHHHHHh
Confidence            344 44588899999999999998876

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=92.54  E-value=0.12  Score=53.59  Aligned_cols=41  Identities=17%  Similarity=0.234  Sum_probs=35.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.++.| .+..|+||||++.+++...++ .|.+|++||++...
T Consensus       383 G~lilI-~G~pGsGKTtLaLq~a~~~~~-~G~~vlyis~E~s~  423 (1706)
T 3cmw_A          383 GRIVEI-YGPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHAL  423 (1706)
T ss_dssp             TSEEEE-ECSTTSSHHHHHHHHHHHHHH-TTCCEEEECTTSCC
T ss_pred             CcEEEE-EeCCCCCHHHHHHHHHHHHHH-hCCCeEEEEccCch
Confidence            345555 599999999999999999999 99999999998654

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=92.51  E-value=0.18  Score=47.20  Aligned_cols=68  Identities=12%  Similarity=0.002  Sum_probs=49.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-------HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-------LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.++|+|||+...........+..+|.+|+|+..+...       ...+...+..+...+.+.+.+|+|+++.
T Consensus       243 ~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl  317 (611)
T 3izq_1          243 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDN  317 (611)
T ss_dssp             SSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTT
T ss_pred             CCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            5678999999975443333445566799999999987642       2355666666777787766799999984

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=92.51  E-value=0.086  Score=40.97  Aligned_cols=33  Identities=27%  Similarity=0.304  Sum_probs=23.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +++|++ .+-.|+||||++..|+..+    |..  .||.|
T Consensus         3 ~~~I~l-~G~~GsGKsT~a~~L~~~~----~~~--~i~~d   35 (196)
T 1tev_A            3 PLVVFV-LGGPGAGKGTQCARIVEKY----GYT--HLSAG   35 (196)
T ss_dssp             CEEEEE-ECCTTSSHHHHHHHHHHHH----CCE--EEEHH
T ss_pred             ceEEEE-ECCCCCCHHHHHHHHHHHh----CCe--EEeHH
Confidence            355665 4889999999999877654    433  46765

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=92.49  E-value=0.28  Score=42.73  Aligned_cols=65  Identities=11%  Similarity=0.040  Sum_probs=35.3

Q ss_pred             ccEEEEcCCCCCCcc--------chhhhhhccCceEEEeeCCCcch---HHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDA--------QLTTTQTLQLSGALIVSTPQDVA---LIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~--------~~~~~~l~~ad~viiv~~~~~~s---~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      .++.++||++.....        ..+...+..+|.+++|...+...   ........+.+..   .+.++ .+|.|+.+.
T Consensus       226 ~~v~l~DT~G~i~~lp~~lve~f~~tl~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~-ilV~NK~Dl  304 (364)
T 2qtf_A          226 RKIMLVDTVGFIRGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPI-LVTLNKIDK  304 (364)
T ss_dssp             EEEEEEECCCBCSSCCGGGHHHHHHHHHGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCE-EEEEECGGG
T ss_pred             EEEEEEeCCCchhcCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCE-EEEEECCCC
Confidence            557788888543310        01223355789888887765432   2222222333333   34444 599999984

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=92.48  E-value=0.12  Score=43.27  Aligned_cols=35  Identities=29%  Similarity=0.378  Sum_probs=25.5

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ..+.+|+|+ +..|+||||++..|+    + .|..+  ||+|.
T Consensus        73 ~~~~iI~I~-G~~GSGKSTva~~La----~-lg~~~--id~D~  107 (281)
T 2f6r_A           73 SGLYVLGLT-GISGSGKSSVAQRLK----N-LGAYI--IDSDH  107 (281)
T ss_dssp             TTCEEEEEE-ECTTSCHHHHHHHHH----H-HTCEE--EEHHH
T ss_pred             CCCEEEEEE-CCCCCCHHHHHHHHH----H-CCCcE--EehhH
Confidence            345677775 788999999998777    3 46554  78874

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=92.47  E-value=0.099  Score=47.71  Aligned_cols=40  Identities=8%  Similarity=0.032  Sum_probs=32.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH-hCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS-KCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~-~~g~~VlliD~D~   71 (295)
                      +.+|.++ +-.|+||||++..||..|.. ..|+.+-++|.|.
T Consensus       395 ~~~I~l~-GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD~  435 (511)
T 1g8f_A          395 GFSIVLG-NSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN  435 (511)
T ss_dssp             CEEEEEC-TTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             ceEEEec-ccCCCCHHHHHHHHHHHHHHhhcCcceEEecCCC
Confidence            4666665 66799999999999999984 2567888898886

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=92.44  E-value=0.13  Score=53.45  Aligned_cols=41  Identities=17%  Similarity=0.234  Sum_probs=34.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.+|.| .+..|+||||++.++|..++. .|.+|+++++....
T Consensus       732 G~lVlI-~G~PG~GKTtLal~lA~~aa~-~g~~VlyiS~Ees~  772 (1706)
T 3cmw_A          732 GRIVEI-YGPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHAL  772 (1706)
T ss_dssp             TSEEEE-ECSTTSSHHHHHHHHHHHHHH-TTCCEEEECTTSCC
T ss_pred             CceEEE-ECCCCCCcHHHHHHHHHHHHH-cCCCeEEEeccchH
Confidence            345555 589999999999999999999 99999999887543

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=92.44  E-value=0.3  Score=37.68  Aligned_cols=66  Identities=12%  Similarity=0.071  Sum_probs=40.7

Q ss_pred             CccEEEEcCCCCCCcc-chhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDA-QLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~-~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+..... ......+..+|.+++|..... .++..+...++.+.+    .+.++ .+|+|+.|.
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  139 (189)
T 1z06_A           68 RIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPR-ILVGNKCDL  139 (189)
T ss_dssp             EEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCE-EEEEECTTC
T ss_pred             EEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccc
Confidence            4679999999643211 222334557899999888654 344555444444432    34554 499999985

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=92.39  E-value=0.45  Score=36.70  Aligned_cols=66  Identities=11%  Similarity=0.051  Sum_probs=41.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc------CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK------VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~------~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+++......+ ...+..+|.++++...+. .++..+...+..+..      .+.++ .+|.|+.|.
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~pi-ilv~nK~Dl  139 (187)
T 3c5c_A           67 QPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPA-LLLGNKLDM  139 (187)
T ss_dssp             EEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCE-EEEEECcch
Confidence            4577889999964332222 234557898888877653 466666655555543      35555 499999985

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=92.38  E-value=0.16  Score=47.11  Aligned_cols=33  Identities=42%  Similarity=0.496  Sum_probs=29.5

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +.++.+-.|+||||++..++..+.. .|.+|+++
T Consensus       206 ~~~I~G~pGTGKTt~i~~l~~~l~~-~g~~Vl~~  238 (574)
T 3e1s_A          206 LVVLTGGPGTGKSTTTKAVADLAES-LGLEVGLC  238 (574)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh-cCCeEEEe
Confidence            4555689999999999999999999 99999987

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=92.37  E-value=0.088  Score=41.07  Aligned_cols=33  Identities=24%  Similarity=0.361  Sum_probs=24.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +++|++. +-.|+||||++..||..+    |..  .+|.|
T Consensus         9 ~~~I~l~-G~~GsGKsT~~~~La~~l----~~~--~i~~d   41 (196)
T 2c95_A            9 TNIIFVV-GGPGSGKGTQCEKIVQKY----GYT--HLSTG   41 (196)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHHHH----CCE--EEEHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHh----CCe--EEcHH
Confidence            4667765 778999999999887655    433  56766

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.36  E-value=0.53  Score=36.32  Aligned_cols=67  Identities=10%  Similarity=0.053  Sum_probs=43.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+. ..+..+...  +.++ .+|.|+.|.
T Consensus        64 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  134 (194)
T 2atx_A           64 KQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPF-LLIGTQIDL  134 (194)
T ss_dssp             CEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCE-EEEEECTTS
T ss_pred             EEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEEChhh
Confidence            34778999999654332333444557899999887654 3465554 455555543  5555 499999985

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=92.31  E-value=0.41  Score=39.80  Aligned_cols=89  Identities=17%  Similarity=0.155  Sum_probs=53.6

Q ss_pred             CccEEEEcCCCCCCcc------chhhhhhc--cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCC
Q 022525          139 NLDILVIDMPPGTGDA------QLTTTQTL--QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHC  210 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~------~~~~~~l~--~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~  210 (295)
                      .+.+.|+|+|+.....      .+....+.  .+|.+++|.+...  .........++...+.+++ +|+||.|..... 
T Consensus        48 ~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~--~e~~~~~~~~l~~~~~p~i-lv~NK~Dl~~~~-  123 (272)
T 3b1v_A           48 NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATN--LERNLYLTTQLIETGIPVT-IALNMIDVLDGQ-  123 (272)
T ss_dssp             CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGG--HHHHHHHHHHHHHTCSCEE-EEEECHHHHHHT-
T ss_pred             CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCc--hHhHHHHHHHHHhcCCCEE-EEEEChhhCCcC-
Confidence            3668999999754422      11122222  4899998887655  3344445555666677765 999999842111 


Q ss_pred             CCCccccCCchhhHHHHHhCCcEEEee
Q 022525          211 SEPSFIFGKGGTHRTAAEMGLKVIGEI  237 (295)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~g~~~~~~I  237 (295)
                           .. ....+.+.+.+|.+++.+-
T Consensus       124 -----~~-~~~~~~l~~~lg~~vi~~S  144 (272)
T 3b1v_A          124 -----GK-KINVDKLSYHLGVPVVATS  144 (272)
T ss_dssp             -----TC-CCCHHHHHHHHTSCEEECB
T ss_pred             -----Cc-HHHHHHHHHHcCCCEEEEE
Confidence                 01 1346777888888776533

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=92.29  E-value=0.076  Score=41.55  Aligned_cols=33  Identities=24%  Similarity=0.285  Sum_probs=23.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +++|++. +..|+||||++..|+..+.-      ..+|.|
T Consensus        12 ~~~I~l~-G~~GsGKsT~a~~L~~~l~~------~~i~~d   44 (199)
T 2bwj_A           12 CKIIFII-GGPGSGKGTQCEKLVEKYGF------THLSTG   44 (199)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHHHHTC------EEEEHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHhCC------eEEcHH
Confidence            3566664 78999999999988775532      456765

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=92.29  E-value=0.1  Score=44.89  Aligned_cols=34  Identities=18%  Similarity=0.332  Sum_probs=25.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++|+| .+..|+||||++..||..+    +  +.+|++|.-
T Consensus         8 ~lI~I-~GptgSGKTtla~~La~~l----~--~~iis~Ds~   41 (340)
T 3d3q_A            8 FLIVI-VGPTASGKTELSIEVAKKF----N--GEIISGDSM   41 (340)
T ss_dssp             EEEEE-ECSTTSSHHHHHHHHHHHT----T--EEEEECCSS
T ss_pred             ceEEE-ECCCcCcHHHHHHHHHHHc----C--Cceeccccc
Confidence            45555 5788999999999887644    3  578999965

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=92.28  E-value=0.1  Score=48.18  Aligned_cols=23  Identities=26%  Similarity=0.330  Sum_probs=19.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAV   54 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~   54 (295)
                      .++|+|+ +-||+||||+|..++.
T Consensus       152 ~~vv~I~-G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          152 SFFLFLH-GRAGSGKSVIASQALS  174 (549)
T ss_dssp             SEEEEEE-CSTTSSHHHHHHHHHH
T ss_pred             ceEEEEE-cCCCCCHHHHHHHHHH
Confidence            5788886 7799999999998875

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=92.22  E-value=0.078  Score=39.51  Aligned_cols=32  Identities=22%  Similarity=0.059  Sum_probs=25.8

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+..|+|||++|..++..... .+...+ +++..
T Consensus        30 ~G~~GtGKt~lA~~i~~~~~~-~~~~~v-~~~~~   61 (145)
T 3n70_A           30 YGAPGTGRMTGARYLHQFGRN-AQGEFV-YRELT   61 (145)
T ss_dssp             ESSTTSSHHHHHHHHHHSSTT-TTSCCE-EEECC
T ss_pred             ECCCCCCHHHHHHHHHHhCCc-cCCCEE-EECCC
Confidence            488899999999988877766 677777 87764

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=92.20  E-value=0.21  Score=40.69  Aligned_cols=35  Identities=23%  Similarity=0.306  Sum_probs=28.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCe-EEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLK-VGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~-Vlli   67 (295)
                      ++.|+|. +-.|+||||.+..|+..|.. .|.+ |.+.
T Consensus        27 ~~~i~~e-G~~GsGKsT~~~~l~~~l~~-~~~~~~~~~   62 (236)
T 3lv8_A           27 AKFIVIE-GLEGAGKSTAIQVVVETLQQ-NGIDHITRT   62 (236)
T ss_dssp             CCEEEEE-ESTTSCHHHHHHHHHHHHHH-TTCCCEEEE
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHh-cCCCeeeee
Confidence            5677775 66789999999999999999 9999 5444

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=92.15  E-value=0.091  Score=46.59  Aligned_cols=66  Identities=12%  Similarity=0.129  Sum_probs=44.5

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.|+|||+...........+..+|.+++|+..+... ...+.+.+..+...+.+.+.+++|+.|.
T Consensus        83 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl  149 (410)
T 1kk1_A           83 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIEL  149 (410)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGG
T ss_pred             cEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccC
Confidence            67999999964332222334455679999999887543 4555555555665666656689999984

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=92.10  E-value=0.16  Score=49.37  Aligned_cols=67  Identities=16%  Similarity=0.085  Sum_probs=50.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+..+........+..+|.+|+|++............+..+...+.+++ +|+|+.|.
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~~~~p~i-lviNK~D~  162 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPV-VVINKVDR  162 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEE-EEEECHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCeE-EEEECCCc
Confidence            46889999999876644455566778999999998877644455566666666777775 89999984

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=92.08  E-value=0.23  Score=39.48  Aligned_cols=35  Identities=23%  Similarity=0.276  Sum_probs=27.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      |++-|+|= +--|+||||.+..|+..|.  .|.+|++.
T Consensus         1 M~kFI~~E-G~dGsGKsTq~~~L~~~L~--~~~~v~~~   35 (205)
T 4hlc_A            1 MSAFITFE-GPEGSGKTTVINEVYHRLV--KDYDVIMT   35 (205)
T ss_dssp             -CEEEEEE-CCTTSCHHHHHHHHHHHHT--TTSCEEEE
T ss_pred             CCCEEEEE-CCCCCcHHHHHHHHHHHHH--CCCCEEEe
Confidence            45777774 6678999999999999994  48888765

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=92.07  E-value=0.14  Score=44.51  Aligned_cols=39  Identities=15%  Similarity=0.150  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC--------CCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC--------QLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~--------g~~VlliD~D~   71 (295)
                      ++.+.+ .+..|+||||++..++..+.. .        +..++.+++..
T Consensus        45 ~~~vll-~G~~G~GKT~la~~l~~~~~~-~~~~~~~~~~~~~~~i~~~~   91 (384)
T 2qby_B           45 KFSNLF-LGLTGTGKTFVSKYIFNEIEE-VKKEDEEYKDVKQAYVNCRE   91 (384)
T ss_dssp             CCEEEE-EECTTSSHHHHHHHHHHHHHH-HHHHSSSSTTCEEEEEEHHH
T ss_pred             CCcEEE-ECCCCCCHHHHHHHHHHHHHH-HhhhhcCCCCceEEEEECcc
Confidence            344544 588999999999999999877 5        78888887643

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.01  E-value=0.24  Score=39.66  Aligned_cols=35  Identities=20%  Similarity=0.298  Sum_probs=28.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCC-eEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQL-KVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~-~Vlli   67 (295)
                      ++.|+|- +-.|+||||.+..|+..|.. .|. .|.+.
T Consensus         3 g~~i~~e-G~~gsGKsT~~~~l~~~l~~-~~~~~v~~~   38 (213)
T 4tmk_A            3 SKYIVIE-GLEGAGKTTARNVVVETLEQ-LGIRDMVFT   38 (213)
T ss_dssp             CCEEEEE-ECTTSCHHHHHHHHHHHHHH-TTCCCEEEE
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCCcceee
Confidence            5677775 77899999999999999999 898 66443

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=92.01  E-value=0.38  Score=37.39  Aligned_cols=67  Identities=12%  Similarity=-0.036  Sum_probs=42.3

Q ss_pred             CCccEEEEcCCCCCCccchh---hhhhccCceEEEeeCCCcchHHHHHHHHHHHhc-----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLT---TTQTLQLSGALIVSTPQDVALIDARKGITMFSK-----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~---~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+++........   ...+..+|.+|+|................++..     .+.++ .+|.|+.|.
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~pi-ilv~nK~Dl  141 (196)
T 3llu_A           67 SFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNF-EVFIHKVDG  141 (196)
T ss_dssp             TSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEE-EEEEECGGG
T ss_pred             CeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcE-EEEEecccc
Confidence            56889999999754321222   344567999999988877533333444344432     24444 599999984

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=92.00  E-value=0.17  Score=40.03  Aligned_cols=38  Identities=42%  Similarity=0.481  Sum_probs=29.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.+|+++ +..|+||||++..|+..+..    ++.+++.|...
T Consensus         6 ~~~i~i~-G~~GsGKSTl~~~l~~~~~~----~i~~v~~d~~~   43 (211)
T 3asz_A            6 PFVIGIA-GGTASGKTTLAQALARTLGE----RVALLPMDHYY   43 (211)
T ss_dssp             CEEEEEE-ESTTSSHHHHHHHHHHHHGG----GEEEEEGGGCB
T ss_pred             cEEEEEE-CCCCCCHHHHHHHHHHHhCC----CeEEEecCccc
Confidence            5788887 55699999999988776643    57888888643

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=91.94  E-value=0.31  Score=38.57  Aligned_cols=65  Identities=17%  Similarity=0.152  Sum_probs=41.1

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      +.+.|+|+|+...........+..+|.++++...+.. +.......+..+..   .+.++ .+|+|+.|.
T Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  129 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPI-VVCANKIDI  129 (218)
T ss_dssp             EEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCE-EEEEECTTC
T ss_pred             EEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCE-EEEEECCCC
Confidence            7799999996433223334445578999888877653 44444444444433   34555 499999984

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=91.89  E-value=0.13  Score=39.30  Aligned_cols=33  Identities=27%  Similarity=0.286  Sum_probs=22.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++| ++.+-.|+||||++..|+..  . .|  ...||.|
T Consensus         3 ~~I-~i~G~~GsGKST~a~~L~~~--~-~~--~~~i~~d   35 (181)
T 1ly1_A            3 KII-LTIGCPGSGKSTWAREFIAK--N-PG--FYNINRD   35 (181)
T ss_dssp             EEE-EEECCTTSSHHHHHHHHHHH--S-TT--EEEECHH
T ss_pred             eEE-EEecCCCCCHHHHHHHHHhh--c-CC--cEEecHH
Confidence            444 44688999999999988762  3 34  4556665

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=91.88  E-value=0.2  Score=47.28  Aligned_cols=36  Identities=31%  Similarity=0.369  Sum_probs=31.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +-++++.+..|+|||++.+++...+.+ .|.+||+.-
T Consensus       205 ~~~~lI~GPPGTGKT~ti~~~I~~l~~-~~~~ILv~a  240 (646)
T 4b3f_X          205 KELAIIHGPPGTGKTTTVVEIILQAVK-QGLKVLCCA  240 (646)
T ss_dssp             SSEEEEECCTTSCHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEc
Confidence            347788899999999999999999999 999999873

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=91.83  E-value=0.21  Score=42.08  Aligned_cols=39  Identities=28%  Similarity=0.294  Sum_probs=31.9

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+.+ .+..|+||||++..+|..+.. .+..++.+|+....
T Consensus        49 ~~ll-~G~~GtGKt~la~~la~~~~~-~~~~~~~~~~~~~~   87 (311)
T 4fcw_A           49 SFLF-LGPTGVGKTELAKTLAATLFD-TEEAMIRIDMTEYM   87 (311)
T ss_dssp             EEEE-ESCSSSSHHHHHHHHHHHHHS-CGGGEEEEEGGGCC
T ss_pred             EEEE-ECCCCcCHHHHHHHHHHHHcC-CCcceEEeeccccc
Confidence            4555 477899999999999999988 78889999887543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=91.82  E-value=0.21  Score=40.78  Aligned_cols=40  Identities=33%  Similarity=0.330  Sum_probs=30.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh----CCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK----CQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~----~g~~VlliD~D~   71 (295)
                      +.+|++. +.-|+||||++.-|+..+...    ...++.+++.|.
T Consensus        25 g~iigI~-G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~v~~d~   68 (245)
T 2jeo_A           25 PFLIGVS-GGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQDR   68 (245)
T ss_dssp             SEEEEEE-CSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEEEEGGG
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHhchhcccccCCceEEEeCCc
Confidence            5788887 888999999999988877531    134677888774

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=91.81  E-value=0.72  Score=35.51  Aligned_cols=68  Identities=15%  Similarity=0.055  Sum_probs=43.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcCC--CCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKVQ--VPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+|++..... .++..+...+..+....  ...+.+|+|+.+.
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl  142 (193)
T 2oil_A           72 AAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDL  142 (193)
T ss_dssp             EEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGG
T ss_pred             EEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCc
Confidence            45778999999644332334445667898888887654 34555555555555431  2334599999985

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=91.79  E-value=0.63  Score=35.77  Aligned_cols=67  Identities=16%  Similarity=0.193  Sum_probs=44.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc------CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK------VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~------~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+...........+..+|.++++.+... .++..+...+..+.+      .+.++ .+|+|+.|.
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  138 (190)
T 2h57_A           65 SSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPI-LFFANKMDL  138 (190)
T ss_dssp             SSCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCE-EEEEECTTS
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeE-EEEEeCcCc
Confidence            35779999999754433333455667899999988765 356666666555543      24444 599999985

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=91.69  E-value=0.13  Score=40.53  Aligned_cols=34  Identities=35%  Similarity=0.378  Sum_probs=24.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+|+++ +.-|+||||++..|+..+    |..  +||+|.-
T Consensus        13 ~iIglt-G~~GSGKSTva~~L~~~l----g~~--vid~D~~   46 (192)
T 2grj_A           13 MVIGVT-GKIGTGKSTVCEILKNKY----GAH--VVNVDRI   46 (192)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHH----CCE--EEEHHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHhc----CCE--EEECcHH
Confidence            567776 678999999998766532    644  5788854

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=91.66  E-value=0.062  Score=42.63  Aligned_cols=34  Identities=32%  Similarity=0.427  Sum_probs=28.5

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +|+| .+-.|+||||++..|+..|.. .|.+|.++.
T Consensus         2 ~I~i-~G~~GsGKsTl~~~L~~~l~~-~g~~v~~~~   35 (214)
T 1gtv_A            2 LIAI-EGVDGAGKRTLVEKLSGAFRA-AGRSVATLA   35 (214)
T ss_dssp             EEEE-EEEEEEEHHHHHHHHHHHHHE-EEEEEEEEE
T ss_pred             EEEE-EcCCCCCHHHHHHHHHHHHHh-cCCeEEEEe
Confidence            4555 477899999999999999998 888888775

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=91.61  E-value=0.17  Score=39.27  Aligned_cols=25  Identities=36%  Similarity=0.505  Sum_probs=19.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +++|.+ .+-.|+||||++..|+..+
T Consensus         5 ~~~I~l-~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIV-TGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEE-EESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHc
Confidence            345555 5788999999999887655

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=91.60  E-value=0.13  Score=45.57  Aligned_cols=67  Identities=10%  Similarity=0.158  Sum_probs=44.7

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-HHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-LIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      +.+.|+|||+...........+..+|.++++++.+... ...+.+.+..++..+.+.+.+++|+.|..
T Consensus        81 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~  148 (408)
T 1s0u_A           81 RRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLV  148 (408)
T ss_dssp             EEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSS
T ss_pred             cEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCC
Confidence            67999999964332122233344679999999887543 45555556666666766566999999953

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=91.59  E-value=0.092  Score=41.39  Aligned_cols=32  Identities=38%  Similarity=0.394  Sum_probs=22.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++|+++ +..|+||||++..|+.     .|..  ++|+|.
T Consensus         2 ~~i~i~-G~~GsGKSTl~~~L~~-----~g~~--~i~~d~   33 (204)
T 2if2_A            2 KRIGLT-GNIGCGKSTVAQMFRE-----LGAY--VLDADK   33 (204)
T ss_dssp             CEEEEE-ECTTSSHHHHHHHHHH-----TTCE--EEEHHH
T ss_pred             eEEEEE-CCCCcCHHHHHHHHHH-----CCCE--EEEccH
Confidence            567775 6789999999886654     4544  467664

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=91.58  E-value=0.28  Score=43.70  Aligned_cols=63  Identities=13%  Similarity=0.251  Sum_probs=44.0

Q ss_pred             cEEEEcCCCCCCccch-------hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          141 DILVIDMPPGTGDAQL-------TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       141 D~iiiD~~~~~~~~~~-------~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      .+.|+|||+.......       ....+..+|.+++|++.+  ........+..+.+.+.+++ +|+|+.|..
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~--~~~~~~~~l~~l~~~~~piI-vV~NK~Dl~  153 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSA--PTPYEDDVVNLFKEMEIPFV-VVVNKIDVL  153 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSS--CCHHHHHHHHHHHHTTCCEE-EECCCCTTT
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCC--ChHHHHHHHHHHHhcCCCEE-EEEeCcCCC
Confidence            6899999964432111       233456799999999873  33455677777777787775 999999854

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=91.57  E-value=0.29  Score=41.65  Aligned_cols=42  Identities=43%  Similarity=0.433  Sum_probs=32.8

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC-CeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQ-LKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g-~~VlliD~D~~   72 (295)
                      .+.+|+|. +..|+||||++..|+..+....| .+|.+|..|..
T Consensus        89 ~g~ivgI~-G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~~  131 (312)
T 3aez_A           89 VPFIIGVA-GSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGF  131 (312)
T ss_dssp             CCEEEEEE-CCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGGG
T ss_pred             CCEEEEEE-CCCCchHHHHHHHHHhhccccCCCCeEEEEecCcc
Confidence            36888886 88899999999999999875134 57888877653

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=91.52  E-value=0.17  Score=39.87  Aligned_cols=34  Identities=32%  Similarity=0.408  Sum_probs=25.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|+++ +.-|+||||++..|+..+    |.  ..+|.|.
T Consensus        29 g~~i~l~-G~~GsGKSTl~~~L~~~~----g~--~~i~~d~   62 (200)
T 4eun_A           29 TRHVVVM-GVSGSGKTTIAHGVADET----GL--EFAEADA   62 (200)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHH----CC--EEEEGGG
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHhh----CC--eEEcccc
Confidence            4677775 888999999999888766    32  5567664

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=91.34  E-value=0.32  Score=38.31  Aligned_cols=30  Identities=40%  Similarity=0.277  Sum_probs=27.0

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      -+--|+||||.+..|+..|.. .|.+|++..
T Consensus         6 EG~DGsGKsTq~~~L~~~L~~-~g~~v~~tr   35 (197)
T 3hjn_A            6 EGIDGSGKSTQIQLLAQYLEK-RGKKVILKR   35 (197)
T ss_dssp             ECSTTSSHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             ECCCCCCHHHHHHHHHHHHHH-CCCcEEEEE
Confidence            477799999999999999999 999998764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=91.32  E-value=0.19  Score=53.06  Aligned_cols=41  Identities=17%  Similarity=0.234  Sum_probs=34.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.++.| .+..|+||||++.++|..+++ .|.+|++||+....
T Consensus       383 G~lilI-~G~pGsGKTtLaLqia~~~a~-~G~~vlyis~E~s~  423 (2050)
T 3cmu_A          383 GRIVEI-YGPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHAL  423 (2050)
T ss_dssp             TSEEEE-ECCTTSSHHHHHHHHHHHHHT-TTCCEEEECTTSCC
T ss_pred             CcEEEE-EeCCCCCHHHHHHHHHHHHHh-cCCeEEEEEcCCCH
Confidence            344444 599999999999999999999 99999999988644

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=91.31  E-value=0.11  Score=40.93  Aligned_cols=34  Identities=29%  Similarity=0.439  Sum_probs=24.8

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +..+..|+|||+++..++..+.. .+..+..+..+
T Consensus        42 ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~~~~~   75 (226)
T 2chg_A           42 LFSGPPGTGKTATAIALARDLFG-ENWRDNFIEMN   75 (226)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHG-GGGGGGEEEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHHhc-cccccceEEec
Confidence            44588899999999999999876 55444334433

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=91.24  E-value=0.54  Score=36.42  Aligned_cols=67  Identities=13%  Similarity=0.072  Sum_probs=42.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|.+... .++..+...+..+...    +.+ +.+|.|+.|.
T Consensus        71 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~p-iilv~NK~Dl  142 (192)
T 2b6h_A           71 KNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAV-LLVFANKQDM  142 (192)
T ss_dssp             TTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCe-EEEEEECCCC
Confidence            45789999999643322333344567899988887654 4577776666655432    444 4599999984

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=90.98  E-value=0.2  Score=39.28  Aligned_cols=34  Identities=21%  Similarity=0.324  Sum_probs=24.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      ++.|++. +-.|+||||++..|+..+   .|.+++.++
T Consensus         4 ~~~I~l~-G~~GsGKsT~~~~L~~~l---~g~~~~~~~   37 (204)
T 2v54_A            4 GALIVFE-GLDKSGKTTQCMNIMESI---PANTIKYLN   37 (204)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHTS---CGGGEEEEE
T ss_pred             CcEEEEE-cCCCCCHHHHHHHHHHHH---CCCceEEEe
Confidence            4667775 778999999999776554   256776554

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=90.96  E-value=0.3  Score=43.95  Aligned_cols=33  Identities=24%  Similarity=0.201  Sum_probs=28.4

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCC-eEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQL-KVGLL   67 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~-~Vlli   67 (295)
                      ..++.+..|+||||++..++..|.. .|. +|+++
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~-~~~~~il~~   80 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALIS-TGETGIILA   80 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH-TTCCCEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHh-cCCceEEEe
Confidence            5566789999999999999999999 787 77776

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=90.96  E-value=0.23  Score=43.02  Aligned_cols=40  Identities=28%  Similarity=0.284  Sum_probs=31.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH--hC---CCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS--KC---QLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~--~~---g~~VlliD~D~   71 (295)
                      +.++.|+ +..|+||||++..++..++.  ..   |.+|+.||...
T Consensus       131 G~i~~I~-G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          131 QAITEVF-GEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             SEEEEEE-ESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            5777776 67799999999999988743  02   46889998764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=90.95  E-value=0.44  Score=36.63  Aligned_cols=67  Identities=15%  Similarity=0.063  Sum_probs=43.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+...........+..+|.+++|.+.+. .++......+..+...    +.+ +.+|+|+.|.
T Consensus        64 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  135 (189)
T 2x77_A           64 KNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSL-LLIFANKQDL  135 (189)
T ss_dssp             TTEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCE-EEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCe-EEEEEECCCC
Confidence            35779999999643322333344557899988888654 3567666655555432    344 4599999984

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=90.87  E-value=0.2  Score=43.31  Aligned_cols=39  Identities=18%  Similarity=0.210  Sum_probs=31.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC---CCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC---QLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~---g~~VlliD~D~   71 (295)
                      +..+.| .+..|+||||++..++..+.. .   +..++.+++..
T Consensus        45 ~~~vli-~G~~G~GKTtl~~~l~~~~~~-~~~~~~~~~~i~~~~   86 (386)
T 2qby_A           45 PNNIFI-YGLTGTGKTAVVKFVLSKLHK-KFLGKFKHVYINTRQ   86 (386)
T ss_dssp             CCCEEE-EECTTSSHHHHHHHHHHHHHH-HTCSSCEEEEEEHHH
T ss_pred             CCeEEE-ECCCCCCHHHHHHHHHHHHHH-HhcCCceEEEEECCC
Confidence            345555 488999999999999998887 5   77888888653

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=90.85  E-value=0.16  Score=43.25  Aligned_cols=34  Identities=32%  Similarity=0.441  Sum_probs=24.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++|+ +++..|+||||++..||..+      ...+|++|..
T Consensus         4 ~~i~-i~GptgsGKt~la~~La~~~------~~~iis~Ds~   37 (322)
T 3exa_A            4 KLVA-IVGPTAVGKTKTSVMLAKRL------NGEVISGDSM   37 (322)
T ss_dssp             EEEE-EECCTTSCHHHHHHHHHHTT------TEEEEECCGG
T ss_pred             cEEE-EECCCcCCHHHHHHHHHHhC------ccceeecCcc
Confidence            4554 46888999999999876543      2467888854

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=90.82  E-value=0.19  Score=43.52  Aligned_cols=39  Identities=21%  Similarity=0.147  Sum_probs=29.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC------CCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC------QLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~------g~~VlliD~D~   71 (295)
                      +..+.| .+..|+||||++..++..+.. .      +..++.+++..
T Consensus        44 ~~~vll-~G~~G~GKT~l~~~~~~~~~~-~~~~~~~~~~~~~i~~~~   88 (387)
T 2v1u_A           44 PSNALL-YGLTGTGKTAVARLVLRRLEA-RASSLGVLVKPIYVNARH   88 (387)
T ss_dssp             CCCEEE-CBCTTSSHHHHHHHHHHHHHH-HHHHHTCCEEEEEEETTT
T ss_pred             CCcEEE-ECCCCCCHHHHHHHHHHHHHH-HHhccCCCeEEEEEECCc
Confidence            344544 588999999999999999876 4      66777777654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=90.73  E-value=0.23  Score=52.40  Aligned_cols=40  Identities=18%  Similarity=0.277  Sum_probs=34.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++.|.+ .+..|+|||++|.+++...++ +|.+|++||++..
T Consensus      1427 g~~vll-~GppGtGKT~LA~ala~ea~~-~G~~v~Fi~~e~~ 1466 (2050)
T 3cmu_A         1427 GRIVEI-YGPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHA 1466 (2050)
T ss_dssp             TSEEEE-ECCTTSSHHHHHHHHHHHHHT-TTCCEEEECTTSC
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHHHH-cCCcEEEEEcccc
Confidence            344444 588999999999999999999 9999999998854

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=90.71  E-value=0.12  Score=42.43  Aligned_cols=37  Identities=24%  Similarity=0.362  Sum_probs=26.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|.+ .+..|+||||++..|+..+    +..+.++|.|.-
T Consensus        32 ~~~i~l-~G~~GsGKSTla~~L~~~l----~~~~~~~~~D~~   68 (253)
T 2p5t_B           32 PIAILL-GGQSGAGKTTIHRIKQKEF----QGNIVIIDGDSF   68 (253)
T ss_dssp             CEEEEE-ESCGGGTTHHHHHHHHHHT----TTCCEEECGGGG
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHhc----CCCcEEEecHHH
Confidence            455554 5889999999999877543    445677888753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=90.70  E-value=0.13  Score=44.24  Aligned_cols=35  Identities=23%  Similarity=0.496  Sum_probs=25.4

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ++|.| .+--|+||||++..||..+      ..-+||+|..+
T Consensus        41 ~lIvI-~GPTgsGKTtLa~~LA~~l------~~eiIs~Ds~q   75 (339)
T 3a8t_A           41 KLLVL-MGATGTGKSRLSIDLAAHF------PLEVINSDKMQ   75 (339)
T ss_dssp             EEEEE-ECSTTSSHHHHHHHHHTTS------CEEEEECCSST
T ss_pred             ceEEE-ECCCCCCHHHHHHHHHHHC------CCcEEcccccc
Confidence            55555 5778999999999776533      34678999654

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=90.70  E-value=0.22  Score=44.54  Aligned_cols=37  Identities=16%  Similarity=0.307  Sum_probs=30.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhC--CCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKC--QLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~--g~~VlliD~D   70 (295)
                      ..+.+ .+..|+||||++..++..+.. .  +.+++.+++.
T Consensus       131 ~~lll-~Gp~G~GKTtLa~aia~~l~~-~~~~~~v~~v~~~  169 (440)
T 2z4s_A          131 NPLFI-YGGVGLGKTHLLQSIGNYVVQ-NEPDLRVMYITSE  169 (440)
T ss_dssp             CCEEE-ECSSSSSHHHHHHHHHHHHHH-HCCSSCEEEEEHH
T ss_pred             CeEEE-ECCCCCCHHHHHHHHHHHHHH-hCCCCeEEEeeHH
Confidence            44555 478899999999999999987 5  8889988765

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=90.55  E-value=0.28  Score=38.45  Aligned_cols=33  Identities=30%  Similarity=0.398  Sum_probs=23.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +..|.+ .+-.|+||||++..|+..+    |..  +||.|
T Consensus        20 ~~~I~l-~G~~GsGKST~a~~La~~l----~~~--~i~~d   52 (201)
T 2cdn_A           20 HMRVLL-LGPPGAGKGTQAVKLAEKL----GIP--QISTG   52 (201)
T ss_dssp             CCEEEE-ECCTTSSHHHHHHHHHHHH----TCC--EEEHH
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHh----CCc--EEehh
Confidence            455655 4888999999999887765    434  46664

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=90.43  E-value=0.24  Score=43.44  Aligned_cols=33  Identities=24%  Similarity=0.282  Sum_probs=27.5

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhC------CCeEEEEEeCC
Q 022525           38 SGKGGVGKSTTAVNLAVALASKC------QLKVGLLDADV   71 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~------g~~VlliD~D~   71 (295)
                      .+.+|+||||++..++..+.. .      +..++.+++..
T Consensus        58 ~G~~G~GKT~L~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   96 (412)
T 1w5s_A           58 IGRVGIGKTTLAKFTVKRVSE-AAAKEGLTVKQAYVNAFN   96 (412)
T ss_dssp             TTCCSSSHHHHHHHHHHHHHH-HHHHTTCCEEEEEEEGGG
T ss_pred             cCcCCCCHHHHHHHHHHHHHH-HHhccCCceeEEEEECCC
Confidence            699999999999999988876 4      66788888753

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=90.40  E-value=0.29  Score=41.19  Aligned_cols=35  Identities=23%  Similarity=0.283  Sum_probs=27.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCC----eEEEEE
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQL----KVGLLD   68 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~----~VlliD   68 (295)
                      ..|.++ +..|+|||+++..+|..+.. .+.    .++.++
T Consensus        68 ~~vll~-G~~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~  106 (309)
T 3syl_A           68 LHMSFT-GNPGTGKTTVALKMAGLLHR-LGYVRKGHLVSVT  106 (309)
T ss_dssp             CEEEEE-ECTTSSHHHHHHHHHHHHHH-TTSSSSCCEEEEC
T ss_pred             ceEEEE-CCCCCCHHHHHHHHHHHHHh-cCCcCCCcEEEEc
Confidence            445554 78999999999999999988 654    566554

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=90.39  E-value=0.22  Score=38.89  Aligned_cols=35  Identities=37%  Similarity=0.414  Sum_probs=24.6

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ..+.+|+++ +..|+||||++..|    ++ .|..  ++|.|.
T Consensus         6 ~~~~~I~i~-G~~GsGKST~~~~L----a~-~g~~--~id~d~   40 (203)
T 1uf9_A            6 KHPIIIGIT-GNIGSGKSTVAALL----RS-WGYP--VLDLDA   40 (203)
T ss_dssp             CCCEEEEEE-ECTTSCHHHHHHHH----HH-TTCC--EEEHHH
T ss_pred             cCceEEEEE-CCCCCCHHHHHHHH----HH-CCCE--EEcccH
Confidence            335777775 67899999998755    45 4544  578773

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=90.37  E-value=0.18  Score=39.93  Aligned_cols=36  Identities=17%  Similarity=0.231  Sum_probs=26.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHH-----HhCC-CeEEEEEeC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALA-----SKCQ-LKVGLLDAD   70 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la-----~~~g-~~VlliD~D   70 (295)
                      |.++.+..|+|||+.|..++..++     + .| ++|.+..+|
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~-~g~r~v~~~~~~   48 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDE-NGIRRKVFTNIK   48 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCT-TSCCCCEEECCT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccc-cCceEEEEecCC
Confidence            444568889999999998877765     5 67 666556544

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=90.31  E-value=0.23  Score=39.12  Aligned_cols=33  Identities=30%  Similarity=0.445  Sum_probs=24.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|+++ +.-|+||||++..|+    . .|..+  +|.|.
T Consensus         2 ~~~i~l~-G~~GsGKST~~~~La----~-lg~~~--id~d~   34 (206)
T 1jjv_A            2 TYIVGLT-GGIGSGKTTIANLFT----D-LGVPL--VDADV   34 (206)
T ss_dssp             CEEEEEE-CSTTSCHHHHHHHHH----T-TTCCE--EEHHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHH----H-CCCcc--cchHH
Confidence            4677776 778999999988664    4 56554  68774

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=90.27  E-value=0.26  Score=39.32  Aligned_cols=33  Identities=27%  Similarity=0.329  Sum_probs=23.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +..|.+. +..|+||||++..||..+    |.  ..||.|
T Consensus         4 ~~~I~l~-G~~GsGKsT~a~~La~~l----~~--~~i~~d   36 (220)
T 1aky_A            4 SIRMVLI-GPPGAGKGTQAPNLQERF----HA--AHLATG   36 (220)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHH----CC--EEEEHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHc----Cc--eEEehh
Confidence            4556664 777999999999887755    33  346654

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=90.23  E-value=0.37  Score=41.77  Aligned_cols=38  Identities=18%  Similarity=0.247  Sum_probs=30.5

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDADVY   72 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D~~   72 (295)
                      .+.| .+..|+||||++..++..+.. . +..++.+++...
T Consensus        46 ~~li-~G~~G~GKTtl~~~l~~~~~~-~~~~~~~~i~~~~~   84 (389)
T 1fnn_A           46 RATL-LGRPGTGKTVTLRKLWELYKD-KTTARFVYINGFIY   84 (389)
T ss_dssp             EEEE-ECCTTSSHHHHHHHHHHHHTT-SCCCEEEEEETTTC
T ss_pred             eEEE-ECCCCCCHHHHHHHHHHHHhh-hcCeeEEEEeCccC
Confidence            5555 588999999999999988877 6 688888886543

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=90.23  E-value=0.33  Score=45.00  Aligned_cols=41  Identities=17%  Similarity=0.133  Sum_probs=28.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH---HHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL---ASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l---a~~~g~~VlliD~D~~   72 (295)
                      .++|+| .+-||+||||++..++...   +......|.-++++..
T Consensus       147 ~~~v~I-~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~  190 (591)
T 1z6t_A          147 PGWVTI-HGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ  190 (591)
T ss_dssp             CEEEEE-ECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC
T ss_pred             CceEEE-EcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC
Confidence            466666 5889999999999987643   2213345777777643

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=90.11  E-value=0.15  Score=43.57  Aligned_cols=34  Identities=24%  Similarity=0.287  Sum_probs=27.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .++ +..+..|+||||++.++|..    .|.+|++|+++
T Consensus       124 svi-LI~GpPGsGKTtLAlqlA~~----~G~~VlyIs~~  157 (331)
T 2vhj_A          124 GMV-IVTGKGNSGKTPLVHALGEA----LGGKDKYATVR  157 (331)
T ss_dssp             EEE-EEECSCSSSHHHHHHHHHHH----HHTTSCCEEEE
T ss_pred             cEE-EEEcCCCCCHHHHHHHHHHh----CCCCEEEEEec
Confidence            444 56799999999999999876    36788999883

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=90.01  E-value=0.15  Score=41.06  Aligned_cols=33  Identities=24%  Similarity=0.319  Sum_probs=22.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++.|.|. +..|+||||++..||..    .|..  .||.|
T Consensus         7 ~~~I~l~-G~~GsGKsT~a~~La~~----l~~~--~i~~d   39 (227)
T 1zd8_A            7 LLRAVIM-GAPGSGKGTVSSRITTH----FELK--HLSSG   39 (227)
T ss_dssp             CCEEEEE-ECTTSSHHHHHHHHHHH----SSSE--EEEHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHH----cCCe--EEech
Confidence            3556664 78999999999877654    4544  45654

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=89.99  E-value=2.1  Score=36.99  Aligned_cols=36  Identities=25%  Similarity=0.308  Sum_probs=27.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      .+|+| .+.-|+||||+...++..+....|.+++.+.
T Consensus       124 g~i~I-~GptGSGKTTlL~~l~g~~~~~~~~~i~t~e  159 (356)
T 3jvv_A          124 GLVLV-TGPTGSGKSTTLAAMLDYLNNTKYHHILTIE  159 (356)
T ss_dssp             EEEEE-ECSTTSCHHHHHHHHHHHHHHHCCCEEEEEE
T ss_pred             CEEEE-ECCCCCCHHHHHHHHHhcccCCCCcEEEEcc
Confidence            45555 5889999999999999888872366666553

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=89.96  E-value=0.28  Score=41.68  Aligned_cols=35  Identities=29%  Similarity=0.370  Sum_probs=25.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +++| +.++..|+||||++..||..+      ..-+|.+|..
T Consensus        10 ~~~i-~i~GptgsGKt~la~~La~~~------~~~iis~Ds~   44 (316)
T 3foz_A           10 PKAI-FLMGPTASGKTALAIELRKIL------PVELISVDSA   44 (316)
T ss_dssp             CEEE-EEECCTTSCHHHHHHHHHHHS------CEEEEECCTT
T ss_pred             CcEE-EEECCCccCHHHHHHHHHHhC------CCcEEecccc
Confidence            3455 456888999999999887543      2457888854

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=89.96  E-value=0.13  Score=39.55  Aligned_cols=30  Identities=30%  Similarity=0.264  Sum_probs=17.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVG   65 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vl   65 (295)
                      +++|.+ .+-.|+||||++..|+..    .|..++
T Consensus         5 ~~~I~l-~G~~GsGKST~a~~La~~----l~~~~i   34 (183)
T 2vli_A            5 SPIIWI-NGPFGVGKTHTAHTLHER----LPGSFV   34 (183)
T ss_dssp             CCEEEE-ECCC----CHHHHHHHHH----STTCEE
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHh----cCCCEE
Confidence            456655 488999999999877543    455554

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=89.93  E-value=0.28  Score=38.51  Aligned_cols=33  Identities=27%  Similarity=0.478  Sum_probs=23.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++|+|+ +..|+||||++..||..+    |.  -++|.|.
T Consensus         3 ~~i~i~-G~~GsGKst~~~~la~~l----g~--~~~d~d~   35 (208)
T 3ake_A            3 GIVTID-GPSASGKSSVARRVAAAL----GV--PYLSSGL   35 (208)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHH----TC--CEEEHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHhc----CC--ceeccch
Confidence            467765 778999999999887655    32  4567773

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=89.86  E-value=0.34  Score=40.87  Aligned_cols=68  Identities=13%  Similarity=0.072  Sum_probs=40.8

Q ss_pred             CCccEEEEcCCCCCCc-------------cchhhhhhccCceEEEeeCCC-cc-hHHHHHHHHHHHhcCCCCeeeEEecc
Q 022525          138 GNLDILVIDMPPGTGD-------------AQLTTTQTLQLSGALIVSTPQ-DV-ALIDARKGITMFSKVQVPILGLVENM  202 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~-------------~~~~~~~l~~ad~viiv~~~~-~~-s~~~~~~~~~~l~~~~~~~~~~ViN~  202 (295)
                      ..++++|+|||+-...             .......+..+|.+++++.+. .. .-......++.+...+.+.+ +|+|+
T Consensus       129 ~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~~i-~v~NK  207 (315)
T 1jwy_B          129 HVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTI-GVITK  207 (315)
T ss_dssp             TSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEE-EEEEC
T ss_pred             CCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCcEE-EEEcC
Confidence            3478999999964320             012233455789887777652 21 11223456666666666664 99999


Q ss_pred             ccCC
Q 022525          203 SCFI  206 (295)
Q Consensus       203 ~~~~  206 (295)
                      .|..
T Consensus       208 ~Dl~  211 (315)
T 1jwy_B          208 LDLM  211 (315)
T ss_dssp             TTSS
T ss_pred             cccC
Confidence            9853

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=89.83  E-value=0.19  Score=38.93  Aligned_cols=34  Identities=26%  Similarity=0.322  Sum_probs=23.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++.|.++ +.-|+||||++..|+..+   .|.  .+||+|
T Consensus        10 ~~~I~l~-G~~GsGKSTv~~~La~~l---~g~--~~id~d   43 (184)
T 1y63_A           10 GINILIT-GTPGTGKTSMAEMIAAEL---DGF--QHLEVG   43 (184)
T ss_dssp             SCEEEEE-CSTTSSHHHHHHHHHHHS---TTE--EEEEHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHhc---CCC--EEeeHH
Confidence            4566664 789999999998666541   243  457877

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=89.80  E-value=0.36  Score=38.48  Aligned_cols=40  Identities=28%  Similarity=0.282  Sum_probs=29.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~   71 (295)
                      +.+++++ +..|+||||++..++..+...     .+.+++.++...
T Consensus        25 G~~~~l~-G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~   69 (231)
T 4a74_A           25 QAITEVF-GEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   69 (231)
T ss_dssp             SEEEEEE-ESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCC
Confidence            5777776 788999999999998865530     155688887654

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=89.74  E-value=0.74  Score=36.43  Aligned_cols=88  Identities=16%  Similarity=0.070  Sum_probs=53.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+.. ++..+...+..+.+.  +.++ .+|.|+.+......    
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~~~~~----  136 (221)
T 3gj0_A           62 GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPI-VLCGNKVDIKDRKV----  136 (221)
T ss_dssp             EEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCCE-EEEEECTTSSSCSS----
T ss_pred             EEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCE-EEEEECCccccccc----
Confidence            457799999996433223334445578999888876653 455555555555442  4555 49999999532211    


Q ss_pred             cccCCchhhHHHHHhCCcEE
Q 022525          215 FIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~~  234 (295)
                          .....++.+..+.+++
T Consensus       137 ----~~~~~~~~~~~~~~~~  152 (221)
T 3gj0_A          137 ----KAKSIVFHRKKNLQYY  152 (221)
T ss_dssp             ----CGGGCCHHHHHTCEEE
T ss_pred             ----cHHHHHHHHHcCCEEE
Confidence                1234556666676654

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=89.72  E-value=0.22  Score=40.98  Aligned_cols=34  Identities=24%  Similarity=0.176  Sum_probs=28.4

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+..|+|||+++..++..+.. .+.+++.|+|...
T Consensus        35 ~G~~GtGKt~la~~i~~~~~~-~~~~~~~v~~~~~   68 (265)
T 2bjv_A           35 IGERGTGKELIASRLHYLSSR-WQGPFISLNCAAL   68 (265)
T ss_dssp             ECCTTSCHHHHHHHHHHTSTT-TTSCEEEEEGGGS
T ss_pred             ECCCCCcHHHHHHHHHHhcCc-cCCCeEEEecCCC
Confidence            488999999999999888777 6788888887643

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=89.65  E-value=0.29  Score=38.82  Aligned_cols=25  Identities=32%  Similarity=0.356  Sum_probs=19.4

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHH
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVA   55 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~   55 (295)
                      .+++|++ .+..|+||||++..|+..
T Consensus         7 ~g~~i~l-~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            7 RGLLIVL-SGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCCEEEE-ECCTTSCHHHHHHHHHHS
T ss_pred             CCcEEEE-ECcCCCCHHHHHHHHHhh
Confidence            3577777 488999999999877644

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=89.61  E-value=0.21  Score=37.81  Aligned_cols=31  Identities=32%  Similarity=0.327  Sum_probs=22.0

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      |++ .+-.|+||||++..|+..+    |..  ++|.|.
T Consensus         3 I~l-~G~~GsGKsT~a~~L~~~l----~~~--~i~~d~   33 (168)
T 2pt5_A            3 IYL-IGFMCSGKSTVGSLLSRSL----NIP--FYDVDE   33 (168)
T ss_dssp             EEE-ESCTTSCHHHHHHHHHHHH----TCC--EEEHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHHh----CCC--EEECcH
Confidence            444 4788999999999887655    434  467663

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=89.56  E-value=0.58  Score=37.87  Aligned_cols=39  Identities=18%  Similarity=0.093  Sum_probs=32.1

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      .++++..+ -+.-|.||||-+..++..+.. +|++|+++-.
T Consensus        17 ~~g~l~v~-~G~MgsGKTT~lL~~~~r~~~-~g~kvli~kp   55 (234)
T 2orv_A           17 TRGQIQVI-LGPMFSGKSTELMRRVRRFQI-AQYKCLVIKY   55 (234)
T ss_dssp             -CCEEEEE-ECCTTSCHHHHHHHHHHHHHT-TTCCEEEEEE
T ss_pred             CceEEEEE-ECCCCCcHHHHHHHHHHHHHH-CCCeEEEEee
Confidence            34665555 577889999999999999999 9999999963

>3nrs_A Dihydrofolate:folylpolyglutamate synthetase; structural genomics, center for structural genomics of infec diseases, csgid; HET: TLA MES; 1.80A {Yersinia pestis} PDB: 3n2a_A* 3pyz_A* 3qcz_A*

Probab=89.55  E-value=0.6  Score=41.67  Aligned_cols=36  Identities=31%  Similarity=0.445  Sum_probs=31.1

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +...++|.|++.   .||||++.-|+..|.. .|++|.++
T Consensus        49 ~~~~~vI~VtGT---NGKgSt~~~l~~iL~~-~G~~vg~~   84 (437)
T 3nrs_A           49 KPAPKIFTVAGT---NGKGTTCCTLEAILLA-AGLRVGVY   84 (437)
T ss_dssp             CSSSEEEEEECS---SSHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             cccCCEEEEECC---cChHHHHHHHHHHHHH-CCCcEEEE
Confidence            334799999844   7899999999999999 99999886

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=89.54  E-value=0.5  Score=38.07  Aligned_cols=41  Identities=24%  Similarity=0.207  Sum_probs=31.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++.|+|. +--|+||||++..|+..|....|.+|.++-..|.
T Consensus        21 ~~~i~~~-G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~   61 (223)
T 3ld9_A           21 SMFITFE-GIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPG   61 (223)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSC
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCC
Confidence            5777775 7789999999999999997524888877445554

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=89.53  E-value=0.26  Score=37.99  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=20.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +++|+++ +..|+||||++..|+..+
T Consensus         5 g~~i~i~-GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLL-GAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhhC
Confidence            5677775 788999999999887654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=89.52  E-value=0.3  Score=41.04  Aligned_cols=33  Identities=18%  Similarity=0.222  Sum_probs=25.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      +.+.+ .+..|+|||+++..+|..+    |.+++.+++
T Consensus        37 ~~lLl-~GppGtGKT~la~aiA~~l----~~~~i~v~~   69 (293)
T 3t15_A           37 LILGI-WGGKGQGKSFQCELVFRKM----GINPIMMSA   69 (293)
T ss_dssp             SEEEE-EECTTSCHHHHHHHHHHHH----TCCCEEEEH
T ss_pred             eEEEE-ECCCCCCHHHHHHHHHHHh----CCCEEEEeH
Confidence            45555 4888999999999888766    667887775

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=89.51  E-value=0.32  Score=38.78  Aligned_cols=24  Identities=42%  Similarity=0.595  Sum_probs=19.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      .+|+++ +..|+||||++..|+..+
T Consensus         6 ~~i~i~-G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITID-GPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEE-CCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            577776 788999999999776654

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=89.49  E-value=0.27  Score=39.75  Aligned_cols=35  Identities=23%  Similarity=0.209  Sum_probs=26.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC----CCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC----QLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~----g~~Vlli   67 (295)
                      ++.|+| .+-.|+||||.+..|+..|.. .    |.+|.+.
T Consensus        25 g~~I~~-eG~~GsGKsT~~~~l~~~l~~-~~~~~g~~v~~~   63 (227)
T 3v9p_A           25 GKFITF-EGIDGAGKTTHLQWFCDRLQE-RLGPAGRHVVVT   63 (227)
T ss_dssp             CCEEEE-ECCC---CHHHHHHHHHHHHH-HHGGGTCCEEEE
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHHHHh-hccccceeeeee
Confidence            456666 588999999999999999998 7    9998654

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=89.47  E-value=0.68  Score=35.36  Aligned_cols=67  Identities=10%  Similarity=0.065  Sum_probs=43.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC----CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV----QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+...........+..+|.+++|...+. .++..+...+..+.+.    +.+ +.+|.|+.|.
T Consensus        60 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  131 (186)
T 1ksh_A           60 RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT-LLIFANKQDL  131 (186)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCc-EEEEEeCccC
Confidence            35779999999643222233344557899998888654 4577766666655432    344 4599999984

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=89.43  E-value=0.32  Score=38.29  Aligned_cols=36  Identities=28%  Similarity=0.405  Sum_probs=25.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.+|+++ +..|+||||++..|+..+     ..+.+||.|..
T Consensus        21 ~~~i~i~-G~~GsGKSTl~~~L~~~~-----~~~~~i~~D~~   56 (207)
T 2qt1_A           21 TFIIGIS-GVTNSGKTTLAKNLQKHL-----PNCSVISQDDF   56 (207)
T ss_dssp             CEEEEEE-ESTTSSHHHHHHHHHTTS-----TTEEEEEGGGG
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHhc-----CCcEEEeCCcc
Confidence            5788886 566999999988654422     14678888853

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=89.33  E-value=0.46  Score=41.62  Aligned_cols=32  Identities=31%  Similarity=0.258  Sum_probs=28.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           39 GKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        39 ~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +..|+||||+...+...+.. .|.+|+++|.+.
T Consensus        42 G~~G~GKs~~~~~~~~~~~~-~~~~~~~~D~~~   73 (392)
T 4ag6_A           42 AKPGAGKSFTAKMLLLREYM-QGSRVIIIDPER   73 (392)
T ss_dssp             CCTTSSHHHHHHHHHHHHHT-TTCCEEEEESSC
T ss_pred             cCCCCCHHHHHHHHHHHHHH-CCCEEEEEeCCc
Confidence            78889999999999999988 899999998654

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=89.27  E-value=0.3  Score=37.84  Aligned_cols=35  Identities=29%  Similarity=0.339  Sum_probs=23.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.+|+++ +..|+||||++..|+..    .+...+.+|.|
T Consensus         9 g~~i~l~-G~~GsGKSTl~~~La~~----~~~g~i~i~~d   43 (191)
T 1zp6_A            9 GNILLLS-GHPGSGKSTIAEALANL----PGVPKVHFHSD   43 (191)
T ss_dssp             TEEEEEE-ECTTSCHHHHHHHHHTC----SSSCEEEECTT
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHhc----cCCCeEEEccc
Confidence            5677775 78899999998877653    23344556544

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=89.18  E-value=1.9  Score=33.44  Aligned_cols=67  Identities=18%  Similarity=0.155  Sum_probs=41.3

Q ss_pred             CCccEEEEcCCCCCCccc-hhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ-LTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~-~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+++...... +....+..+|.++++...+. .++..+...+..+..    .+.++ .+|.|+.|.
T Consensus        70 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl  142 (195)
T 3cbq_A           70 EEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPV-ILVGNKSDL  142 (195)
T ss_dssp             EEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCE-EEEEECTTC
T ss_pred             EEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEeechhc
Confidence            346788999985433211 22233446898888877654 456666665555543    24555 499999985

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=89.16  E-value=0.54  Score=35.78  Aligned_cols=67  Identities=16%  Similarity=0.077  Sum_probs=42.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|...+. .++.... ..+..+...  +.++ .+|+|+.|.
T Consensus        51 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  121 (186)
T 1mh1_A           51 KPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTKLDL  121 (186)
T ss_dssp             EEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCE-EEEEECHHH
T ss_pred             EEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCE-EEEeEcccc
Confidence            45678899999643322233344557899988888655 4555554 344455432  4555 499999984

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=88.99  E-value=0.29  Score=37.88  Aligned_cols=23  Identities=48%  Similarity=0.678  Sum_probs=18.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAV   54 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~   54 (295)
                      +.+|+++ +..|+||||++..|+.
T Consensus         2 g~ii~l~-G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            2 KKLYIIT-GPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEEE-CSTTSSHHHHHHHHHH
T ss_pred             CeEEEEE-CCCCCcHHHHHHHHhc
Confidence            4566664 7799999999998874

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=88.98  E-value=0.25  Score=40.59  Aligned_cols=34  Identities=26%  Similarity=0.360  Sum_probs=25.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +++|+++ +..|+||||++..||..+.-      -++|.|.
T Consensus        48 g~~i~l~-G~~GsGKSTl~~~La~~lg~------~~~d~d~   81 (250)
T 3nwj_A           48 GRSMYLV-GMMGSGKTTVGKIMARSLGY------TFFDCDT   81 (250)
T ss_dssp             TCCEEEE-CSTTSCHHHHHHHHHHHHTC------EEEEHHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHhcCC------cEEeCcH
Confidence            4667775 78899999999988876644      4567663

>1w78_A FOLC bifunctional protein; DHFS, dihydrofolate synthase, synthase, ATP-binding, folate biosynthesis, ligase, multifunctional enzyme; HET: KCX PD8 ADP; 1.82A {Escherichia coli} PDB: 1w7k_A*

Probab=88.96  E-value=0.68  Score=41.06  Aligned_cols=35  Identities=34%  Similarity=0.350  Sum_probs=30.4

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ...++|+|++.   .||||++.-++..|.. .|++|.++
T Consensus        47 ~~~~vI~VTGT---nGKtTT~~~l~~iL~~-~G~~~g~~   81 (422)
T 1w78_A           47 PAPFVFTVAGT---NGKGTTCRTLESILMA-AGYKVGVY   81 (422)
T ss_dssp             CSSEEEEEECS---SCHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             cCCcEEEEeCC---cChHHHHHHHHHHHHH-CCCCEEEE
Confidence            34689999855   6899999999999999 99999876

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=88.92  E-value=0.8  Score=41.24  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.4

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHH
Q 022525           37 ASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..+..|||||+++..+|..+..
T Consensus       206 L~G~pG~GKT~la~~la~~l~~  227 (468)
T 3pxg_A          206 LIGEPGVGKTAIAEGLAQQIIN  227 (468)
T ss_dssp             EESCTTTTTHHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHHHHHHh
Confidence            3488999999999999999876

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=88.85  E-value=0.43  Score=38.08  Aligned_cols=33  Identities=30%  Similarity=0.386  Sum_probs=25.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +..|+++ +--|+||||++.    .|++ .|..|  ||+|.
T Consensus         9 ~~~iglT-GgigsGKStv~~----~l~~-~g~~v--idaD~   41 (210)
T 4i1u_A            9 MYAIGLT-GGIGSGKTTVAD----LFAA-RGASL--VDTDL   41 (210)
T ss_dssp             CCEEEEE-CCTTSCHHHHHH----HHHH-TTCEE--EEHHH
T ss_pred             eeEEEEE-CCCCCCHHHHHH----HHHH-CCCcE--EECcH
Confidence            5678887 667899999988    4567 78776  68886

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=88.83  E-value=0.58  Score=36.73  Aligned_cols=67  Identities=12%  Similarity=0.067  Sum_probs=42.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+. ..+..+...  +.+++ +|.|+.|.
T Consensus        55 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl  125 (212)
T 2j0v_A           55 QIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIV-LVGTKLDL  125 (212)
T ss_dssp             CEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEE-EEEECHHH
T ss_pred             EEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEE-EEEeCHHh
Confidence            45789999999654322333344567899999987654 4555554 455555442  55554 99999984

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=88.79  E-value=0.95  Score=34.87  Aligned_cols=90  Identities=10%  Similarity=-0.060  Sum_probs=51.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHH-HHHHHHHhcC--CCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDA-RKGITMFSKV--QVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~-~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+ ...+..+...  +.+ +.+|.|+.|.....    
T Consensus        69 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl~~~~----  143 (194)
T 3reg_A           69 EEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAK-TVLVGLKVDLRKDG----  143 (194)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSE-EEEEEECGGGCCTT----
T ss_pred             EEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhhccCC----
Confidence            45678999999643322333444557899988887654 345554 3344444432  344 45999999954211    


Q ss_pred             ccccCCchhhHHHHHhCCc
Q 022525          214 SFIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~  232 (295)
                      ..........++.+.++..
T Consensus       144 ~~~~~~~~~~~~~~~~~~~  162 (194)
T 3reg_A          144 SDDVTKQEGDDLCQKLGCV  162 (194)
T ss_dssp             TTCCCHHHHHHHHHHHTCS
T ss_pred             CCcccHHHHHHHHHhcCCC
Confidence            1112234466666766654

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=88.76  E-value=0.31  Score=37.40  Aligned_cols=25  Identities=36%  Similarity=0.418  Sum_probs=18.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      ++.|.+ .+-.|+||||++..|+..+
T Consensus        11 ~~~i~i-~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILL-TGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEE-ECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEE-EeCCCCCHHHHHHHHHHHh
Confidence            345555 5888999999999877654

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=88.71  E-value=0.67  Score=35.14  Aligned_cols=67  Identities=13%  Similarity=0.060  Sum_probs=40.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+. ..+..+..  .+.++ .+|.|+.|.
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  124 (182)
T 3bwd_D           54 ATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPI-VLVGTKLDL  124 (182)
T ss_dssp             ----CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCE-EEEEECHHH
T ss_pred             EEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEechhh
Confidence            35667899999754332333444557899999888754 4555554 35555544  24555 499999984

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=88.71  E-value=1.5  Score=34.08  Aligned_cols=67  Identities=12%  Similarity=0.185  Sum_probs=42.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      +++.+.++|+|+...........+..+|.++++.+... .++..+...+..+.+    .+.|+ .+|.|+.|.
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~NK~Dl  138 (198)
T 1f6b_A           67 AGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPI-LILGNKIDR  138 (198)
T ss_dssp             TTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCE-EEEEECTTS
T ss_pred             CCEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcE-EEEEECCCc
Confidence            34778999999643322333344557899999888654 467777666665543    34555 599999984

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=88.68  E-value=1.4  Score=33.62  Aligned_cols=86  Identities=12%  Similarity=0.032  Sum_probs=49.7

Q ss_pred             CCccEEEEcCCCCCCcc------chhhhhh--ccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCC
Q 022525          138 GNLDILVIDMPPGTGDA------QLTTTQT--LQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPH  209 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~------~~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~  209 (295)
                      +.+.+.|+|+|+.....      .+....+  ..+|.++++.....  .......+..+...+.+++ +|.|+.+.....
T Consensus        52 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~--~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~~  128 (188)
T 2wjg_A           52 NGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA--LERNLYLTLQLMEMGANLL-LALNKMDLAKSL  128 (188)
T ss_dssp             TTEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG--HHHHHHHHHHHHTTTCCEE-EEEECHHHHHHT
T ss_pred             CCcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh--HHHHHHHHHHHHhcCCCEE-EEEEhhhccccc
Confidence            34678999999644321      1111111  24788888877653  5555566666666666665 899998843111


Q ss_pred             CCCCccccCCchhhHHHHHhCCcE
Q 022525          210 CSEPSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~g~~~  233 (295)
                      .      . ....+++.+.++.++
T Consensus       129 ~------~-~~~~~~~~~~~~~~~  145 (188)
T 2wjg_A          129 G------I-EIDVDKLEKILGVKV  145 (188)
T ss_dssp             T------C-CCCHHHHHHHHTSCE
T ss_pred             c------c-hHHHHHHHHHhCCCe
Confidence            0      0 123566666666543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=88.66  E-value=0.48  Score=38.00  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=20.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      .+++|.+. +..|+||+|.|..|+..+
T Consensus        28 k~kiI~ll-GpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVL-GGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEE-CCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHH
Confidence            36788777 678999999999887644

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=88.58  E-value=1.8  Score=32.35  Aligned_cols=64  Identities=9%  Similarity=-0.008  Sum_probs=38.8

Q ss_pred             CccEEEEcCCCCCCcc------chhhhhh--ccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDA------QLTTTQT--LQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~------~~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+.+.++|||+.....      .+....+  ..+|.++++.+....  ......+..+.+.+.+++ +|.|+.+.
T Consensus        49 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~--~~~~~~~~~~~~~~~p~i-lv~nK~Dl  120 (165)
T 2wji_A           49 GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATAL--ERNLYLTLQLMEMGANLL-LALNKMDL  120 (165)
T ss_dssp             TEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCH--HHHHHHHHHHHHTTCCEE-EEEECHHH
T ss_pred             CcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCch--hHhHHHHHHHHhcCCCEE-EEEEchHh
Confidence            4568999998644321      0111111  268999998887653  333444555555566654 99999884

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=88.56  E-value=0.58  Score=42.18  Aligned_cols=38  Identities=16%  Similarity=0.128  Sum_probs=30.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.+.++.+-.|+||||++..|+..+.. .+.++..++.|
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~-~~~~t~~~~~d   76 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNF-IGVPTREFNVG   76 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhc-cCCCceEEecc
Confidence            444455588999999999999999988 78888777644

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=88.54  E-value=0.44  Score=38.43  Aligned_cols=33  Identities=27%  Similarity=0.287  Sum_probs=23.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +..|.|. +..|+||||++..||..+.    .  ..||.|
T Consensus        16 ~~~I~l~-G~~GsGKsT~a~~La~~l~----~--~~i~~d   48 (233)
T 1ak2_A           16 GVRAVLL-GPPGAGKGTQAPKLAKNFC----V--CHLATG   48 (233)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHHT----C--EEEEHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhC----C--ceecHH
Confidence            4556664 7779999999998887653    2  456654

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=88.48  E-value=0.35  Score=44.64  Aligned_cols=65  Identities=12%  Similarity=0.065  Sum_probs=43.0

Q ss_pred             ccEEEEcCCCCCCc-----------cchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGD-----------AQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~-----------~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..++|+|||+-...           .......+..+|.+++|+.+... ........++.+...+.++ .+|+|+.|.
T Consensus       154 ~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~pv-ilVlNK~Dl  230 (550)
T 2qpt_A          154 ESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDKI-RVVLNKADM  230 (550)
T ss_dssp             HHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGGE-EEEEECGGG
T ss_pred             CCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCCE-EEEEECCCc
Confidence            35899999964321           01222345578999999988763 3455566677776555554 599999984

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=88.43  E-value=0.42  Score=38.88  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=20.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      +.+|++. +..|+||||++..|+..+.
T Consensus        27 ~~~i~l~-G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           27 LLRAVIL-GPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHhC
Confidence            4677775 8899999999998876653

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=88.37  E-value=0.64  Score=40.24  Aligned_cols=67  Identities=15%  Similarity=0.100  Sum_probs=41.9

Q ss_pred             CccEEEEcCCCCCCc-------------cchhhhhhccCceEEEeeCCCc--chHHHHHHHHHHHhcCCCCeeeEEeccc
Q 022525          139 NLDILVIDMPPGTGD-------------AQLTTTQTLQLSGALIVSTPQD--VALIDARKGITMFSKVQVPILGLVENMS  203 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~-------------~~~~~~~l~~ad~viiv~~~~~--~s~~~~~~~~~~l~~~~~~~~~~ViN~~  203 (295)
                      ..++.|+|+|+-...             .......+..+|.+|+++.+..  .........+..+...+.+.+ +|+|+.
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i-~V~nK~  213 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDRTF-GVLTKI  213 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEE-EEEECG
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEE-EEEeCC
Confidence            568999999953331             1233444567887777765432  233444556666655566665 899999


Q ss_pred             cCC
Q 022525          204 CFI  206 (295)
Q Consensus       204 ~~~  206 (295)
                      |..
T Consensus       214 Dl~  216 (360)
T 3t34_A          214 DLM  216 (360)
T ss_dssp             GGC
T ss_pred             ccC
Confidence            853

>3orf_A Dihydropteridine reductase; alpha-beta-alpha sandwich, rossmann fold, oxidoreductase (AC NADH), NADH binding, oxidoreductase; HET: NAD; 2.16A {Dictyostelium discoideum}

Probab=88.36  E-value=0.42  Score=39.01  Aligned_cols=41  Identities=17%  Similarity=0.127  Sum_probs=32.1

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ...|+|++.|+++.||.|+     ++|..|++ +|.+|+++|-+...
T Consensus        18 ~~~m~k~vlITGas~gIG~-----~la~~l~~-~G~~V~~~~r~~~~   58 (251)
T 3orf_A           18 GSHMSKNILVLGGSGALGA-----EVVKFFKS-KSWNTISIDFRENP   58 (251)
T ss_dssp             ----CCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESSCCT
T ss_pred             ccccCCEEEEECCCCHHHH-----HHHHHHHH-CCCEEEEEeCCccc
Confidence            4456799999999999985     77888999 99999999877643

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=88.33  E-value=0.34  Score=44.66  Aligned_cols=40  Identities=38%  Similarity=0.369  Sum_probs=31.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|+++ +..|+||||++..|+..+....|.++.++|.|.
T Consensus       369 G~iI~Li-G~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~  408 (552)
T 3cr8_A          369 GFTVFFT-GLSGAGKSTLARALAARLMEMGGRCVTLLDGDI  408 (552)
T ss_dssp             CEEEEEE-ESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHH
T ss_pred             ceEEEEE-CCCCChHHHHHHHHHHhhcccCCceEEEECCcH
Confidence            5777776 668899999999999999862345777787663

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=88.32  E-value=0.51  Score=36.26  Aligned_cols=33  Identities=30%  Similarity=0.390  Sum_probs=23.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +..|++. +-.|+||||++..|+..+    |.  ..+|.|
T Consensus         4 g~~I~l~-G~~GsGKST~~~~La~~l----~~--~~i~~d   36 (186)
T 3cm0_A            4 GQAVIFL-GPPGAGKGTQASRLAQEL----GF--KKLSTG   36 (186)
T ss_dssp             EEEEEEE-CCTTSCHHHHHHHHHHHH----TC--EEECHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHh----CC--eEecHH
Confidence            4556554 789999999999887654    43  346665

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=88.28  E-value=0.52  Score=44.02  Aligned_cols=35  Identities=37%  Similarity=0.454  Sum_probs=27.1

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHh---CCCeEEEE
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASK---CQLKVGLL   67 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~---~g~~Vlli   67 (295)
                      -+.+..+..|+||||++..+...|.+.   .|.+|+++
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~  202 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA  202 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEE
Confidence            355556889999999999999988851   45677776

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=88.16  E-value=1.6  Score=37.16  Aligned_cols=67  Identities=13%  Similarity=0.074  Sum_probs=41.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc-C---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK-V---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~-~---~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|||+...........+..+|.+|+|...+ ..++..+...+..+.. .   +.++ .+|+|+.|.
T Consensus       207 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilV~NK~Dl  278 (329)
T 3o47_A          207 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVL-LVFANKQDL  278 (329)
T ss_dssp             TTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEE-EEEEECTTS
T ss_pred             CcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeE-EEEEECccC
Confidence            4578999999975443333444456789998888775 3466666655554433 2   4444 599999984

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=88.11  E-value=0.4  Score=42.32  Aligned_cols=40  Identities=23%  Similarity=0.174  Sum_probs=30.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~   71 (295)
                      +.++.|+ +..|+||||++..++......     .+.+|++||...
T Consensus       178 Gei~~I~-G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          178 GSITELF-GEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             TSEEEEE-ESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CcEEEEE-cCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            4566665 889999999999988766531     257899998774

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=88.07  E-value=0.34  Score=38.69  Aligned_cols=26  Identities=15%  Similarity=0.188  Sum_probs=19.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      ++.|.|. +-.|+||||++..||..+.
T Consensus         5 ~~~I~l~-G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMIS-GAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEE-ESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhC
Confidence            4556664 6789999999998877553

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=87.97  E-value=1.2  Score=33.87  Aligned_cols=67  Identities=12%  Similarity=0.007  Sum_probs=41.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHH-HHHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDA-RKGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~-~~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++...+. .++..+ ...+..+..  .+.+ +.+|.|+.|.
T Consensus        53 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl  123 (184)
T 1m7b_A           53 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKSDL  123 (184)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECGGG
T ss_pred             EEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEEEcchh
Confidence            45778999999643322233334557898888887654 455555 334444443  2444 4599999985

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=87.93  E-value=0.44  Score=39.01  Aligned_cols=26  Identities=42%  Similarity=0.586  Sum_probs=20.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      .+.+|+|. +..|+||||++..||..|
T Consensus        26 ~g~~I~I~-G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVD-GPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEE-CCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHhc
Confidence            35788886 778999999999777444

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=87.89  E-value=0.94  Score=37.35  Aligned_cols=38  Identities=24%  Similarity=0.323  Sum_probs=29.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D   70 (295)
                      +.+++|+ +.-|+||||+...|+..+.. . ..++.+.+-+
T Consensus        25 g~~v~i~-Gp~GsGKSTll~~l~g~~~~-~~~G~I~~~g~~   63 (261)
T 2eyu_A           25 MGLILVT-GPTGSGKSTTIASMIDYINQ-TKSYHIITIEDP   63 (261)
T ss_dssp             SEEEEEE-CSTTCSHHHHHHHHHHHHHH-HCCCEEEEEESS
T ss_pred             CCEEEEE-CCCCccHHHHHHHHHHhCCC-CCCCEEEEcCCc
Confidence            5777776 66799999999999998876 4 5677665533

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=87.77  E-value=0.3  Score=38.48  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=19.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +++|+++ +..|+||||++..|+..+
T Consensus        12 ~~~i~l~-G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVC-GPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEE-CCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHhC
Confidence            4666664 778899999999887654

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=87.69  E-value=0.62  Score=42.64  Aligned_cols=38  Identities=16%  Similarity=0.257  Sum_probs=32.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.++++. +..|+||||++..++..++. .|.+++.+...
T Consensus       281 G~i~~i~-G~~GsGKSTLl~~l~g~~~~-~G~~vi~~~~e  318 (525)
T 1tf7_A          281 DSIILAT-GATGTGKTLLVSRFVENACA-NKERAILFAYE  318 (525)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHHHHHT-TTCCEEEEESS
T ss_pred             CcEEEEE-eCCCCCHHHHHHHHHHHHHh-CCCCEEEEEEe
Confidence            4566665 88999999999999999998 89999888754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=87.37  E-value=0.48  Score=37.04  Aligned_cols=25  Identities=24%  Similarity=0.442  Sum_probs=19.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +.+|+++ +..|+||||++..|+..+
T Consensus         7 g~ii~l~-Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIIS-APSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEE-CcCCCCHHHHHHHHHhhC
Confidence            5778876 778999999999777553

>2vos_A Folylpolyglutamate synthase protein FOLC; ligase, peptidoglycan synthesis, cell division; HET: ADP; 2.0A {Mycobacterium tuberculosis} PDB: 2vor_A*

Probab=87.31  E-value=0.74  Score=41.73  Aligned_cols=34  Identities=18%  Similarity=0.190  Sum_probs=29.7

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ..++|+|++.   .||||++.-|+..|.. .|++|.++
T Consensus        63 ~~~vI~VtGT---NGKtST~~~l~~iL~~-~G~~vG~~   96 (487)
T 2vos_A           63 SYPSIHIAGT---NGKTSVARMVDALVTA-LHRRTGRT   96 (487)
T ss_dssp             SSCEEEEECS---SSHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             cCeEEEEeCC---CCcHHHHHHHHHHHHH-cCCCeEEE
Confidence            4689999855   5899999999999999 99999766

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=87.16  E-value=0.82  Score=36.84  Aligned_cols=34  Identities=24%  Similarity=0.297  Sum_probs=26.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ++.|+|. +-.|+||||++..|+..+..  |.+|+..
T Consensus        26 g~~i~i~-G~~GsGKsT~~~~l~~~l~~--~~~~~~~   59 (229)
T 4eaq_A           26 SAFITFE-GPEGSGKTTVINEVYHRLVK--DYDVIMT   59 (229)
T ss_dssp             CEEEEEE-CCTTSCHHHHHHHHHHHHTT--TSCEEEE
T ss_pred             CeEEEEE-cCCCCCHHHHHHHHHHHHhc--CCCceee
Confidence            5777775 77789999999999988865  6677543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=87.14  E-value=0.49  Score=37.00  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=19.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +.+|+++ +..|+||||++..|+..+
T Consensus         6 g~~i~l~-G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLS-GPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEE-CSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHhh
Confidence            5677776 778999999998776544

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=87.13  E-value=0.52  Score=36.69  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=18.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      .|++ .+-.|+||||++..|+..|.
T Consensus         2 ~I~i-~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAI-FGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEE-ECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEE-ECCCccCHHHHHHHHHHhcC
Confidence            3444 47789999999998887653

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

Probab=87.07  E-value=0.73  Score=45.83  Aligned_cols=41  Identities=20%  Similarity=0.312  Sum_probs=29.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHH--HHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVA--LASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~--la~~~g~~VlliD~D~~   72 (295)
                      .++|+|+ +-||+||||+|..++..  .....+..++.++.+..
T Consensus       150 ~RVV~Iv-GmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~  192 (1221)
T 1vt4_I          150 AKNVLID-GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNC  192 (1221)
T ss_dssp             SCEEEEC-CSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCS
T ss_pred             CeEEEEE-cCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCC
Confidence            4778775 77999999999998853  33324556888887643

>1jbw_A Folylpolyglutamate synthase; FPGS folate AMPPCP ternary complex, ligase; HET: KCX ACQ TMF; 1.85A {Lactobacillus casei} SCOP: c.59.1.2 c.72.2.2 PDB: 1fgs_A* 1jbv_A* 2gca_A 2gc5_A* 2gc6_A* 2gcb_A

Probab=87.03  E-value=0.77  Score=40.78  Aligned_cols=34  Identities=32%  Similarity=0.375  Sum_probs=30.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ..++|+|++.   .||||++.-|+..|.. .|++|.++
T Consensus        38 ~~~vI~VtGT---nGKtTT~~~l~~iL~~-~G~~vg~~   71 (428)
T 1jbw_A           38 QGRYIHVTGT---NGKGSAANAIAHVLEA-SGLTVGLY   71 (428)
T ss_dssp             SSCEEEEECS---SCHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             cCcEEEEECC---CChHHHHHHHHHHHHH-CCCCEEEE
Confidence            3689999855   6899999999999999 99999877

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=86.99  E-value=1.2  Score=34.97  Aligned_cols=41  Identities=17%  Similarity=0.097  Sum_probs=31.7

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ..++++..++ +.-|.||||-.......+.. +|++|+++...
T Consensus        17 ~~~g~l~fiy-G~MgsGKTt~Ll~~i~n~~~-~~~kvl~~kp~   57 (195)
T 1w4r_A           17 KTRGQIQVIL-GPMFSGKSTELMRRVRRFQI-AQYKCLVIKYA   57 (195)
T ss_dssp             --CCEEEEEE-ECTTSCHHHHHHHHHHHHHH-TTCCEEEEEET
T ss_pred             CCceEEEEEE-CCCCCcHHHHHHHHHHHHHH-cCCeEEEEccc
Confidence            3456766655 77789999988888888888 89999999644

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=86.97  E-value=1.3  Score=34.30  Aligned_cols=66  Identities=14%  Similarity=0.041  Sum_probs=41.8

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhc--CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      .+.+.|+|+|+...........+..+|.+++|...+. .++..+. ..+..+..  .+.++ .+|.|+.|.
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  136 (201)
T 2q3h_A           67 PVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPI-ILVGTQSDL  136 (201)
T ss_dssp             EEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCE-EEEEECGGG
T ss_pred             EEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEECHhh
Confidence            4678899999644322333344567899998888654 3555554 34444443  24555 499999985

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=86.79  E-value=0.55  Score=41.37  Aligned_cols=34  Identities=32%  Similarity=0.595  Sum_probs=25.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++|+| ++..|+||||++..||..+..      .+|.+|..
T Consensus         3 ~~i~i-~GptgsGKttla~~La~~~~~------~iis~Ds~   36 (409)
T 3eph_A            3 KVIVI-AGTTGVGKSQLSIQLAQKFNG------EVINSDSM   36 (409)
T ss_dssp             EEEEE-EECSSSSHHHHHHHHHHHHTE------EEEECCTT
T ss_pred             cEEEE-ECcchhhHHHHHHHHHHHCCC------eEeecCcc
Confidence            45555 578899999999988876643      46888853

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=86.70  E-value=1  Score=39.21  Aligned_cols=36  Identities=25%  Similarity=0.350  Sum_probs=29.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-CCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC-QLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD   68 (295)
                      +.+|+|+ +.-|+||||+...|+..+.. . ..+|+.++
T Consensus       136 g~~i~iv-G~~GsGKTTll~~l~~~~~~-~~~g~I~~~e  172 (372)
T 2ewv_A          136 MGLILVT-GPTGSGKSTTIASMIDYINQ-TKSYHIITIE  172 (372)
T ss_dssp             SEEEEEE-CSSSSSHHHHHHHHHHHHHH-HSCCEEEEEE
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhhcCc-CCCcEEEEec
Confidence            5677775 67799999999999999887 5 56777776

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=86.69  E-value=0.46  Score=37.82  Aligned_cols=25  Identities=24%  Similarity=0.315  Sum_probs=19.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +..|.|. +..|+||||++..||..+
T Consensus         5 ~~~I~l~-G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            5 KHNLILI-GAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CCEEEEE-ECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            3456665 677999999999887765

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=86.50  E-value=0.62  Score=37.76  Aligned_cols=34  Identities=41%  Similarity=0.541  Sum_probs=23.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|+|. +..|+||||++..||..|.-      ..+|.|.
T Consensus         9 ~~~i~i~-G~~GsGKsTla~~la~~lg~------~~~d~g~   42 (233)
T 3r20_A            9 SLVVAVD-GPAGTGKSSVSRGLARALGA------RYLDTGA   42 (233)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHHTC------EEEEHHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhCC------CcccCCc
Confidence            3466664 77889999999988766543      4466654

>3ged_A Short-chain dehydrogenase/reductase SDR; SCOR, rossmann fold, oxidoreductase; 1.70A {Clostridium thermocellum atcc 27405} PDB: 3geg_A*

Probab=86.44  E-value=0.56  Score=38.40  Aligned_cols=35  Identities=26%  Similarity=0.435  Sum_probs=30.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .|++.|+++.+|.|+     .+|..|++ .|.+|+++|.|.
T Consensus         2 nK~vlVTGas~GIG~-----aia~~la~-~Ga~V~~~~~~~   36 (247)
T 3ged_A            2 NRGVIVTGGGHGIGK-----QICLDFLE-AGDKVCFIDIDE   36 (247)
T ss_dssp             CCEEEEESTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEecCCCHHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            488999999999997     56788999 999999998774

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=86.18  E-value=0.64  Score=36.89  Aligned_cols=26  Identities=38%  Similarity=0.452  Sum_probs=20.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..+.| .+..|+||||++..++..+..
T Consensus        46 ~~~ll-~G~~G~GKT~l~~~~~~~~~~   71 (250)
T 1njg_A           46 HAYLF-SGTRGVGKTSIARLLAKGLNC   71 (250)
T ss_dssp             SEEEE-ECSTTSCHHHHHHHHHHHHHC
T ss_pred             eEEEE-ECCCCCCHHHHHHHHHHHhcC
Confidence            34444 588999999999999887765

>3nva_A CTP synthase; rossman fold, nucleotide binding, LIG; 2.50A {Sulfolobus solfataricus}

Probab=86.16  E-value=1.4  Score=40.00  Aligned_cols=42  Identities=26%  Similarity=0.349  Sum_probs=37.8

Q ss_pred             CeEEEEeeCC-CCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGK-GGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~k-GGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +|-|.|+++- .|.||-.+|+.|+..|.. +|.+|..+-+||--
T Consensus         3 ~k~i~vtggv~s~lgkgi~~as~g~ll~~-~g~~v~~~k~dpyl   45 (535)
T 3nva_A            3 NKYIVVTGGVLSSVGKGTLVASIGMLLKR-RGYNVTAVKIDPYI   45 (535)
T ss_dssp             CEEEEEECCCSTTTTHHHHHHHHHHHHHH-TTCCEEEEEEECSS
T ss_pred             ceEEEEeCccccCcchHHHHHHHHHHHHH-CCceEEEEecCcce
Confidence            5778887765 899999999999999999 99999999999854

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=86.12  E-value=0.49  Score=37.55  Aligned_cols=32  Identities=38%  Similarity=0.566  Sum_probs=23.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.+|+|. +.-|+||||++..|+    + .|..  ++|.|
T Consensus         4 ~~~I~i~-G~~GSGKST~~~~L~----~-lg~~--~id~D   35 (218)
T 1vht_A            4 RYIVALT-GGIGSGKSTVANAFA----D-LGIN--VIDAD   35 (218)
T ss_dssp             CEEEEEE-CCTTSCHHHHHHHHH----H-TTCE--EEEHH
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHH----H-cCCE--EEEcc
Confidence            3566664 889999999888664    4 5654  46876

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=85.97  E-value=0.58  Score=37.88  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=20.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      ++.|+|. +--|+||||++..|+..|
T Consensus         2 ~~~i~~~-G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIE-GNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEE-ECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEE-cCCCCCHHHHHHHHHHHc
Confidence            4677775 668999999999887765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=85.89  E-value=1  Score=43.21  Aligned_cols=38  Identities=26%  Similarity=0.287  Sum_probs=31.4

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+.| .+..|||||++|..+|..+.. .+.+.+.||+...
T Consensus       523 ~~Ll-~Gp~GtGKT~lA~ala~~l~~-~~~~~i~i~~s~~  560 (758)
T 3pxi_A          523 SFIF-LGPTGVGKTELARALAESIFG-DEESMIRIDMSEY  560 (758)
T ss_dssp             EEEE-ESCTTSSHHHHHHHHHHHHHS-CTTCEEEEEGGGG
T ss_pred             EEEE-ECCCCCCHHHHHHHHHHHhcC-CCcceEEEechhc
Confidence            3444 478899999999999999987 7889999988543

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=85.71  E-value=0.87  Score=42.64  Aligned_cols=34  Identities=24%  Similarity=0.328  Sum_probs=27.3

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +.++.+..|+||||+.+.+...+.+..+.+|+++
T Consensus       197 ~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~  230 (624)
T 2gk6_A          197 LSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  230 (624)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEE
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            4556688999999999999988875257788876

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=85.63  E-value=0.63  Score=39.64  Aligned_cols=34  Identities=26%  Similarity=0.140  Sum_probs=25.6

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+..+..|+||||++..++..+.    .+++.+++..
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~~~----~~~~~~~~~~   65 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINELN----LPYIYLDLRK   65 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT----CCEEEEEGGG
T ss_pred             cEEEECCCCCCHHHHHHHHHHhcC----CCEEEEEchh
Confidence            444568899999999998876543    3578888764

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=85.57  E-value=1  Score=35.60  Aligned_cols=32  Identities=34%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++.|.|+ +..|+||||+|..|    ++ +|.  -+|..|
T Consensus        34 g~~ilI~-GpsGsGKStLA~~L----a~-~g~--~iIsdD   65 (205)
T 2qmh_A           34 GLGVLIT-GDSGVGKSETALEL----VQ-RGH--RLIADD   65 (205)
T ss_dssp             TEEEEEE-CCCTTTTHHHHHHH----HT-TTC--EEEESS
T ss_pred             CEEEEEE-CCCCCCHHHHHHHH----HH-hCC--eEEecc
Confidence            5666665 78899999998854    56 666  334444

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=85.57  E-value=2.3  Score=32.37  Aligned_cols=67  Identities=12%  Similarity=0.049  Sum_probs=43.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.++|+|+...........+..+|.+++|.+... .++......+..+.+    .+.++ .+|.|+.|.
T Consensus        58 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~NK~Dl  129 (181)
T 1fzq_A           58 QGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPV-LIFANKQDL  129 (181)
T ss_dssp             TTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCE-EEEEECTTS
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCE-EEEEECcCc
Confidence            35778999999643322222334567899999887654 466666665554432    24454 599999984

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=85.49  E-value=0.91  Score=36.92  Aligned_cols=34  Identities=21%  Similarity=0.189  Sum_probs=24.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +-|.+ .+..|+|||+++..+|..+    +.+++.+++.
T Consensus        40 ~~vll-~G~~GtGKT~la~~la~~~----~~~~~~~~~~   73 (262)
T 2qz4_A           40 KGALL-LGPPGCGKTLLAKAVATEA----QVPFLAMAGA   73 (262)
T ss_dssp             CEEEE-ESCTTSSHHHHHHHHHHHH----TCCEEEEETT
T ss_pred             ceEEE-ECCCCCCHHHHHHHHHHHh----CCCEEEechH
Confidence            44544 4788999999999887744    5577777664

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=85.45  E-value=0.81  Score=35.73  Aligned_cols=28  Identities=29%  Similarity=0.344  Sum_probs=23.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQ   61 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g   61 (295)
                      .+++++ +.-|+||||+..-|+..+.. .|
T Consensus         2 ~~i~i~-G~nG~GKTTll~~l~g~~~~-~G   29 (189)
T 2i3b_A            2 RHVFLT-GPPGVGKTTLIHKASEVLKS-SG   29 (189)
T ss_dssp             CCEEEE-SCCSSCHHHHHHHHHHHHHH-TT
T ss_pred             CEEEEE-CCCCChHHHHHHHHHhhccc-CC
Confidence            356665 88899999999999999986 88

>3eag_A UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-ME diaminopimelate ligase; UDP-N-acetylmuramate:L-alanyl-G glutamyl-MESO-diaminopimelate ligase; 2.55A {Neisseria meningitidis MC58}

Probab=85.45  E-value=1.1  Score=38.32  Aligned_cols=31  Identities=45%  Similarity=0.440  Sum_probs=27.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVG   65 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vl   65 (295)
                      .++|+|+   |-.||||++.-+++.|.. .|+++.
T Consensus       108 ~~~IaVT---GTnGKTTTt~ll~~iL~~-~g~~~~  138 (326)
T 3eag_A          108 HWVLGVA---GTHGKTTTASMLAWVLEY-AGLAPG  138 (326)
T ss_dssp             SEEEEEE---SSSCHHHHHHHHHHHHHH-TTCCCE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHH-cCCCce
Confidence            4899997   558999999999999999 998874

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=85.32  E-value=0.64  Score=37.48  Aligned_cols=34  Identities=32%  Similarity=0.363  Sum_probs=24.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+|+++ +.-|+||||++..|+..|    |.  ..+|.|.
T Consensus        16 ~~~i~i~-G~~gsGKst~~~~l~~~l----g~--~~~d~d~   49 (236)
T 1q3t_A           16 TIQIAID-GPASSGKSTVAKIIAKDF----GF--TYLDTGA   49 (236)
T ss_dssp             CCEEEEE-CSSCSSHHHHHHHHHHHH----CC--EEEEHHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHc----CC--ceecCCC
Confidence            5677776 678999999998776544    43  4567764

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=85.17  E-value=0.73  Score=36.30  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=19.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHH
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVA   55 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~   55 (295)
                      .+++|++ ++..|+||||+...|...
T Consensus        18 ~g~~ivl-~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           18 GRKTLVL-IGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             SCCEEEE-ECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEE-ECcCCCCHHHHHHHHHhh
Confidence            4567766 588899999999877654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=85.05  E-value=0.83  Score=38.91  Aligned_cols=27  Identities=7%  Similarity=0.051  Sum_probs=22.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +..+ +.++..|+|||+++..++..|..
T Consensus        45 ~~~l-li~GpPGTGKT~~v~~v~~~L~~   71 (318)
T 3te6_A           45 NKLF-YITNADDSTKFQLVNDVMDELIT   71 (318)
T ss_dssp             CCEE-EEECCCSHHHHHHHHHHHHHHHH
T ss_pred             CCeE-EEECCCCCCHHHHHHHHHHHHHH
Confidence            4555 44699999999999999999976

>1e8c_A UDP-N-acetylmuramoylalanyl-D-glutamate--2,6- diaminopimelate ligase; peptidoglycan biosynthesis; HET: KCX UAG API; 2.00A {Escherichia coli} SCOP: c.98.1.1 c.59.1.1 c.72.2.1

Probab=85.04  E-value=1.2  Score=40.37  Aligned_cols=34  Identities=24%  Similarity=0.140  Sum_probs=29.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ..++|+|+   |-.||||++.-|+..|.. .|++|.++
T Consensus       107 ~~~vI~VT---GTnGKTTT~~ml~~iL~~-~g~~~~~~  140 (498)
T 1e8c_A          107 NLRLVGVT---GTNGKTTTTQLLAQWSQL-LGEISAVM  140 (498)
T ss_dssp             SSEEEEEE---SSSCHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             cCeEEEEe---CCcChHHHHHHHHHHHHh-CCCCEEEE
Confidence            35899997   457899999999999999 99999776

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=84.95  E-value=0.86  Score=36.65  Aligned_cols=34  Identities=24%  Similarity=0.398  Sum_probs=24.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ..+|+| ++--|+||||++..||..|.    .+  ++|.|.
T Consensus        14 ~~iI~i-~g~~gsGk~~i~~~la~~lg----~~--~~d~~~   47 (223)
T 3hdt_A           14 NLIITI-EREYGSGGRIVGKKLAEELG----IH--FYDDDI   47 (223)
T ss_dssp             CEEEEE-EECTTSCHHHHHHHHHHHHT----CE--EECHHH
T ss_pred             CeEEEE-eCCCCCCHHHHHHHHHHHcC----Cc--EEcHHH
Confidence            456666 68899999999998876654    34  467654

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=84.68  E-value=0.98  Score=36.66  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=19.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +..|.+ .+-.|+||||++..|+..+
T Consensus        29 ~~~I~l-~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           29 DGRYIF-LGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CEEEEE-ECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEE-ECCCCCCHHHHHHHHHHHh
Confidence            355555 4888999999999887554

>3vtz_A Glucose 1-dehydrogenase; rossmann fold, oxidoreductase, NAD binding; 2.30A {Thermoplasma volcanium}

Probab=84.65  E-value=0.81  Score=37.75  Aligned_cols=39  Identities=26%  Similarity=0.269  Sum_probs=32.5

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ...+|+|.|+++.||.|+     ++|..|++ .|.+|+++|.+..
T Consensus        11 ~~~~k~vlVTGas~GIG~-----aia~~l~~-~G~~V~~~~r~~~   49 (269)
T 3vtz_A           11 EFTDKVAIVTGGSSGIGL-----AVVDALVR-YGAKVVSVSLDEK   49 (269)
T ss_dssp             TTTTCEEEESSTTSHHHH-----HHHHHHHH-TTCEEEEEESCC-
T ss_pred             CCCCCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEeCCch
Confidence            345799999999999996     67888999 9999999987754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=84.59  E-value=0.55  Score=37.33  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=18.8

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      .|.| .+..|+||||++..||..+
T Consensus        60 ~ili-~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           60 CLVF-CGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             EEEE-ESCGGGCHHHHHHHHHHHH
T ss_pred             EEEE-ECCCCCCHHHHHHHHHHHh
Confidence            4444 5999999999999988876

>2vo1_A CTP synthase 1; pyrimidine biosynthesis, glutamine amidotransferase, phosphorylation, amidotransferase, cytidine 5-prime triphos synthetase, UTP; 2.8A {Homo sapiens} SCOP: c.37.1.10 PDB: 3ihl_A*

Probab=84.57  E-value=2.3  Score=35.03  Aligned_cols=42  Identities=31%  Similarity=0.418  Sum_probs=35.7

Q ss_pred             CeEEEEe-eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVA-SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~-s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +|-|.|+ +--.|.||-.+|+.||..|.. +|.+|-++-+||--
T Consensus        23 ~KyIfVTGGVvS~lGKGi~aaSlg~lLk~-~G~~Vt~~K~DPYl   65 (295)
T 2vo1_A           23 MKYILVTGGVISGIGKGIIASSVGTILKS-CGLHVTSIKIDPYI   65 (295)
T ss_dssp             CEEEEEEECSSSSSSHHHHHHHHHHHHHH-TTCCEEEEEEECSS
T ss_pred             ceEEEEcCCcccccccHHHHHHHHHHHHH-CCCcceeeecccce
Confidence            4655555 456789999999999999999 99999999999854

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=84.53  E-value=1.4  Score=36.24  Aligned_cols=41  Identities=10%  Similarity=0.033  Sum_probs=32.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.++.+.++.||.|| |++.+++..-++ +|.+++++-++...
T Consensus        21 gs~~li~g~p~~~~~-~l~~qfl~~g~~-~Ge~~~~~~~~e~~   61 (260)
T 3bs4_A           21 SLILIHEEDASSRGK-DILFYILSRKLK-SDNLVGMFSISYPL   61 (260)
T ss_dssp             CEEEEEECSGGGCHH-HHHHHHHHHHHH-TTCEEEEEECSSCH
T ss_pred             CcEEEEEeCCCccHH-HHHHHHHHHHHH-CCCcEEEEEEeCCH
Confidence            567777545555555 999999999999 99999999988543

>1o5z_A Folylpolyglutamate synthase/dihydrofolate synthas; TM0166, structural genomics, JC protein structure initiative; 2.10A {Thermotoga maritima} SCOP: c.59.1.2 c.72.2.2

Probab=84.41  E-value=1.1  Score=40.12  Aligned_cols=34  Identities=24%  Similarity=0.232  Sum_probs=29.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ..++|+|++.   .||||++.-|+..|.. .|++|.++
T Consensus        51 ~~~vI~VTGT---nGKtTT~~~l~~iL~~-~G~~vg~~   84 (442)
T 1o5z_A           51 EYKTIHIGGT---NGKGSVANMVSNILVS-QGYRVGSY   84 (442)
T ss_dssp             SSEEEEEECS---SSHHHHHHHHHHHHHH-HTCCEEEE
T ss_pred             cCCEEEEECC---cCHHHHHHHHHHHHHH-CCCCEEEE
Confidence            3589999754   7899999999999999 99999876

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=84.36  E-value=1.2  Score=37.08  Aligned_cols=35  Identities=29%  Similarity=0.268  Sum_probs=26.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .-+.++ +..|+|||+++..+|..+    +.+++.+++..
T Consensus        51 ~~vll~-G~~GtGKT~la~~la~~l----~~~~~~i~~~~   85 (310)
T 1ofh_A           51 KNILMI-GPTGVGKTEIARRLAKLA----NAPFIKVEATK   85 (310)
T ss_dssp             CCEEEE-CCTTSSHHHHHHHHHHHH----TCCEEEEEGGG
T ss_pred             ceEEEE-CCCCCCHHHHHHHHHHHh----CCCEEEEcchh
Confidence            344444 888999999999888766    45777787654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=84.18  E-value=0.73  Score=36.13  Aligned_cols=26  Identities=27%  Similarity=0.348  Sum_probs=20.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      +++++|+ +..|+||||+...|...+.
T Consensus         4 g~~i~lv-GpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLS-GPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEE-CCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhhCc
Confidence            4667665 7889999999998877664

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=84.17  E-value=0.86  Score=35.96  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=17.0

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHH
Q 022525           34 IAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      |++ .+..|+||||++..|+..+
T Consensus         3 I~l-~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            3 IVL-MGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHHh
Confidence            444 5888999999999887544

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=84.12  E-value=0.62  Score=46.95  Aligned_cols=40  Identities=18%  Similarity=0.124  Sum_probs=28.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh---CCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK---CQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~---~g~~VlliD~D~   71 (295)
                      .++|+|+ +-||+||||+|..++......   ....|+.+++..
T Consensus       147 ~~~v~i~-G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~  189 (1249)
T 3sfz_A          147 PGWVTIY-GMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK  189 (1249)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCS
T ss_pred             CCEEEEE-eCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECC
Confidence            5777776 889999999999888764321   234566776654

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=84.11  E-value=0.77  Score=38.42  Aligned_cols=32  Identities=28%  Similarity=0.209  Sum_probs=21.9

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.++.+-.|+||||++..|+..+   .|  ...||.|
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~~---~~--~~~i~~D   35 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAKN---PG--FYNINRD   35 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS---TT--EEEECHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC---CC--cEEeccc
Confidence            34446889999999999877621   23  4556666

>3l6e_A Oxidoreductase, short-chain dehydrogenase/reducta; structural genomics, PSI-2, protein structure initiative; 2.30A {Aeromonas hydrophila subsp} SCOP: c.2.1.0

Probab=84.06  E-value=0.85  Score=36.76  Aligned_cols=35  Identities=20%  Similarity=0.356  Sum_probs=30.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.||.|+     .+|..|++ +|.+|+++|-+.
T Consensus         3 ~k~vlVTGas~GIG~-----a~a~~l~~-~G~~V~~~~r~~   37 (235)
T 3l6e_A            3 LGHIIVTGAGSGLGR-----ALTIGLVE-RGHQVSMMGRRY   37 (235)
T ss_dssp             CCEEEEESTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEECCCCHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            588999999999996     67888999 999999998763

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=84.00  E-value=1.2  Score=43.09  Aligned_cols=34  Identities=24%  Similarity=0.328  Sum_probs=27.9

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +.++.+..|+||||+.+.+...+.+..+.+|+++
T Consensus       373 ~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~  406 (800)
T 2wjy_A          373 LSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  406 (800)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEE
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEE
Confidence            5566799999999999999988886257788776

>2ehd_A Oxidoreductase, oxidoreductase, short-chain dehydrogenase/reducta; rossman fold, structural genomics, NPPSFA; 2.40A {Thermus thermophilus}

Probab=83.83  E-value=0.78  Score=36.69  Aligned_cols=36  Identities=25%  Similarity=0.442  Sum_probs=30.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.++|.|+++.||.|+     +++..|++ +|.+|.+++-+.
T Consensus         4 ~~k~vlVtGasggiG~-----~~a~~l~~-~G~~V~~~~r~~   39 (234)
T 2ehd_A            4 MKGAVLITGASRGIGE-----ATARLLHA-KGYRVGLMARDE   39 (234)
T ss_dssp             CCCEEEESSTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCCEEEEECCCcHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            4688999999999985     67778899 999999997653

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=83.70  E-value=0.52  Score=39.83  Aligned_cols=34  Identities=24%  Similarity=0.281  Sum_probs=28.3

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+..|+|||++|..++..... .+...+.|+|...
T Consensus        31 ~Ge~GtGKt~lAr~i~~~~~~-~~~~~v~v~~~~~   64 (304)
T 1ojl_A           31 HGDSGTGKELVARALHACSAR-SDRPLVTLNCAAL   64 (304)
T ss_dssp             ESCTTSCHHHHHHHHHHHSSC-SSSCCCEEECSSC
T ss_pred             ECCCCchHHHHHHHHHHhCcc-cCCCeEEEeCCCC
Confidence            488899999999999887777 7888888887643

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=83.66  E-value=0.97  Score=39.69  Aligned_cols=30  Identities=17%  Similarity=0.101  Sum_probs=24.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQL   62 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~   62 (295)
                      +..++|++ ..|+||||++..++...++ .+.
T Consensus       174 GQr~~IvG-~sG~GKTtLl~~Iar~i~~-~~~  203 (422)
T 3ice_A          174 GQRGLIVA-PPKAGKTMLLQNIAQSIAY-NHP  203 (422)
T ss_dssp             TCEEEEEC-CSSSSHHHHHHHHHHHHHH-HCT
T ss_pred             CcEEEEec-CCCCChhHHHHHHHHHHhh-cCC
Confidence            67788874 4699999999999999987 443

>2wtz_A UDP-N-acetylmuramoyl-L-alanyl-D-glutamate- -2,6-diaminopimelate ligase; nucleotide-binding, peptidoglycan synthesis, MURE, C shape; HET: KCX UAG; 3.00A {Mycobacterium tuberculosis} PDB: 2xja_A*

Probab=83.50  E-value=1.5  Score=40.12  Aligned_cols=34  Identities=29%  Similarity=0.401  Sum_probs=29.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ..++|+|+   |-.||||++.-|+..|.. .|++|.++
T Consensus       145 ~~~vI~VT---GTnGKTTT~~ml~~iL~~-~G~~~g~~  178 (535)
T 2wtz_A          145 RLTVIGIT---GTSGKTTTTYLVEAGLRA-AGRVAGLI  178 (535)
T ss_dssp             SSEEEEEE---SSSCHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             cceEEEee---CCCChHHHHHHHHHHHHH-CCCCEEEE
Confidence            35899997   457899999999999999 99999875

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=83.40  E-value=1.1  Score=35.56  Aligned_cols=22  Identities=36%  Similarity=0.444  Sum_probs=17.0

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHH
Q 022525           34 IAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      |.|. +..|+||+|.|..||..+
T Consensus         3 Iil~-GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            3 LVFL-GPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEE-CSTTSSHHHHHHHHHHHH
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHH
Confidence            3343 789999999999887654

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=83.27  E-value=1.1  Score=33.76  Aligned_cols=25  Identities=20%  Similarity=0.323  Sum_probs=21.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +.++++. +.-|+||||+...++..+
T Consensus        33 Ge~v~L~-G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           33 AIMVYLN-GDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHhC
Confidence            6788887 677999999999999888

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=83.19  E-value=0.74  Score=41.40  Aligned_cols=40  Identities=13%  Similarity=0.140  Sum_probs=31.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCC-eEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQL-KVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~-~VlliD~D~~   72 (295)
                      +.++++. +.-|+||||+..-|+-.+.. .+. +++.+|.|+.
T Consensus       138 Ge~v~Iv-GpnGsGKSTLlr~L~Gl~~p-~~G~~pI~vdg~~~  178 (460)
T 2npi_A          138 GPRVVIV-GGSQTGKTSLSRTLCSYALK-FNAYQPLYINLDPQ  178 (460)
T ss_dssp             CCCEEEE-ESTTSSHHHHHHHHHHTTHH-HHCCCCEEEECCTT
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHhCcccc-cCCceeEEEcCCcc
Confidence            6778887 77899999999999988876 444 6567887764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=82.94  E-value=0.97  Score=35.71  Aligned_cols=30  Identities=20%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      |+| .+..|+||||++..|+..+    |..+  ||.|
T Consensus         3 I~l-~G~~GsGKsT~a~~L~~~~----g~~~--i~~d   32 (214)
T 1e4v_A            3 IIL-LGAPVAGKGTQAQFIMEKY----GIPQ--ISTG   32 (214)
T ss_dssp             EEE-EESTTSSHHHHHHHHHHHH----CCCE--EEHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHHh----CCeE--EeHH
Confidence            444 4677999999999887655    4444  5553

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=82.92  E-value=1.1  Score=34.45  Aligned_cols=23  Identities=35%  Similarity=0.576  Sum_probs=18.8

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      ++++ +.-|+||||+...|+-.+.
T Consensus         3 i~l~-G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            3 IIIT-GEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEE-CCTTSSHHHHHHHHHHHHG
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHhC
Confidence            4554 8899999999999888774

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=82.89  E-value=1.5  Score=38.82  Aligned_cols=37  Identities=22%  Similarity=0.214  Sum_probs=30.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .++.+  +.-|+|||++...+...+.. .|.+|+++|...
T Consensus        55 h~~i~--G~tGsGKs~~~~~li~~~~~-~g~~viv~Dpkg   91 (437)
T 1e9r_A           55 HLLVN--GATGTGKSVLLRELAYTGLL-RGDRMVIVDPNG   91 (437)
T ss_dssp             CEEEE--ECTTSSHHHHHHHHHHHHHH-TTCEEEEEEETT
T ss_pred             eEEEE--CCCCCCHHHHHHHHHHHHHH-CCCcEEEEeCCC
Confidence            44444  77899999998888888888 899999998653

>1o5i_A 3-oxoacyl-(acyl carrier protein) reductase; TM1169, structur genomics, JCSG, PSI, protein structure initiative, joint CE structural genomics; HET: NAD; 2.50A {Thermotoga maritima} SCOP: c.2.1.2

Probab=82.81  E-value=1.2  Score=36.28  Aligned_cols=38  Identities=16%  Similarity=0.182  Sum_probs=31.4

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .-.+|++.|+++.||.|+     ++|..|++ +|.+|.++|-+.
T Consensus        16 ~~~~k~vlVTGas~gIG~-----~~a~~l~~-~G~~V~~~~r~~   53 (249)
T 1o5i_A           16 GIRDKGVLVLAASRGIGR-----AVADVLSQ-EGAEVTICARNE   53 (249)
T ss_dssp             CCTTCEEEEESCSSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             ccCCCEEEEECCCCHHHH-----HHHHHHHH-CCCEEEEEcCCH
Confidence            334789999999999996     56778899 999999998664

>2ekp_A 2-deoxy-D-gluconate 3-dehydrogenase; structural genomics, NPPSFA, nation project on protein structural and functional analyses; HET: NAD; 1.15A {Thermus thermophilus} PDB: 1x1e_A* 2ekq_A

Probab=82.80  E-value=1  Score=36.20  Aligned_cols=35  Identities=23%  Similarity=0.403  Sum_probs=30.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.||.|+     .++..|++ +|.+|.++|-+.
T Consensus         2 ~k~vlVTGas~giG~-----~~a~~l~~-~G~~V~~~~r~~   36 (239)
T 2ekp_A            2 ERKALVTGGSRGIGR-----AIAEALVA-RGYRVAIASRNP   36 (239)
T ss_dssp             CCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESSC
T ss_pred             CCEEEEeCCCcHHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            578999999999996     57778999 999999998765

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=82.68  E-value=0.54  Score=37.28  Aligned_cols=33  Identities=30%  Similarity=0.351  Sum_probs=22.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+|++ .+.-|+||||++..|+..    .|..  ++|.|.
T Consensus         4 ~~i~i-~G~~gsGkst~~~~l~~~----~g~~--~~~~d~   36 (219)
T 2h92_A            4 INIAL-DGPAAAGKSTIAKRVASE----LSMI--YVDTGA   36 (219)
T ss_dssp             CCEEE-ECCTTSSHHHHHHHHHHH----TTCE--EEEHHH
T ss_pred             eEEEE-ECCCCCCHHHHHHHHHHh----cCCc--eecCCh
Confidence            45655 478899999999876543    4544  577764

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=82.64  E-value=0.93  Score=35.68  Aligned_cols=26  Identities=31%  Similarity=0.427  Sum_probs=21.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      +.++++. +..|+||||+...|+-.+.
T Consensus        20 Gei~~l~-GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           20 GRVVVLS-GPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             CCEEEEE-CSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhhCC
Confidence            5788886 7889999999998877663

>2l8b_A Protein TRAI, DNA helicase I; RECD, hydrolase; NMR {Escherichia coli}

Probab=82.54  E-value=4  Score=31.64  Aligned_cols=110  Identities=18%  Similarity=0.237  Sum_probs=59.5

Q ss_pred             CeEEEEeeCCCCCcHHHH-HHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC-cc-ccccCcccccccCCceeecc
Q 022525           31 KDVIAVASGKGGVGKSTT-AVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK-PE-VTKDMKMVPIENYGVKCMSM  107 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~-a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~-~~-~~~~~~~~~~~~~~~~~~~~  107 (295)
                      .+.++++|+-||++|++- ...|+..... .|++|.++--|-..   ...++.... .+ .........   ....+-+.
T Consensus        50 ~~~~~iv~g~ggs~~~~~~~a~L~~~a~~-~Gr~V~vLAp~~~s---~~~l~~~~~l~~~t~t~~~ll~---~~~~~tp~  122 (189)
T 2l8b_A           50 RPSLAIVSGQGGAAGQRERVAELVMMARE-QGREVQIIAADRRS---QMNMKQDERLSGELITGRRQLL---EGMAFTPG  122 (189)
T ss_dssp             SCCEECCBCSSCSHHHHHHHHHHHHHHHH-TTCCEEEECSTTHH---HHHHSCTTTCSSCSSSTTTTTT---TSCCCCCC
T ss_pred             CCceEEEecccchHHHHHHHHHHHHHHHh-cCeEEEEEcCchHH---HHHHHhhcCcCcceeehhhhhc---CCCCCCCC
Confidence            467889999999999988 5556666666 99999999544211   112211110 00 000000000   00000010


Q ss_pred             ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCC
Q 022525          108 GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTG  152 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~  152 (295)
                      +.+     ..+..+....+++..+++..+..+-.+|++|.....+
T Consensus       123 s~l-----IVD~AekLS~kE~~~Lld~A~~~naqvvll~~~~RqG  162 (189)
T 2l8b_A          123 STV-----IVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTG  162 (189)
T ss_dssp             CEE-----EEEESSSHHHHHHHHHHHHHHHTTCCEEEEESSTTTC
T ss_pred             CEE-----EEechhhcCHHHHHHHHHHHHhcCCEEEEeCCccccc
Confidence            000     1112355667788888887765678889988885444

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=82.53  E-value=1.1  Score=35.72  Aligned_cols=21  Identities=24%  Similarity=0.260  Sum_probs=17.0

Q ss_pred             EeeCCCCCcHHHHHHHHHHHH
Q 022525           36 VASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      ++.+-.|+||||++..|+..+
T Consensus         4 ~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            4 LIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEECCTTSCHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            335889999999999887655

>3p19_A BFPVVD8, putative blue fluorescent protein; rossmann-fold, oxidoreductase; HET: NAP; 2.05A {Vibrio vulnificus}

Probab=82.46  E-value=1.1  Score=37.00  Aligned_cols=36  Identities=19%  Similarity=0.368  Sum_probs=30.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++|++.|+++.||.|+     .+|..|++ .|.+|+++|-+.
T Consensus        15 ~~k~vlVTGas~gIG~-----aia~~l~~-~G~~V~~~~r~~   50 (266)
T 3p19_A           15 MKKLVVITGASSGIGE-----AIARRFSE-EGHPLLLLARRV   50 (266)
T ss_dssp             CCCEEEEESTTSHHHH-----HHHHHHHH-TTCCEEEEESCH
T ss_pred             CCCEEEEECCCCHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            4689999999999997     67788999 999999998653

>3gem_A Short chain dehydrogenase; structural genomics, APC65077, oxidoreductase, PSI-2, protein structure initiative; 1.83A {Pseudomonas syringae PV}

Probab=82.38  E-value=0.8  Score=37.60  Aligned_cols=39  Identities=15%  Similarity=0.027  Sum_probs=31.1

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ...+|++.|+++.||.|+     ++|..|++ .|.+|+++|-+..
T Consensus        24 ~l~~k~vlVTGas~gIG~-----aia~~l~~-~G~~V~~~~r~~~   62 (260)
T 3gem_A           24 TLSSAPILITGASQRVGL-----HCALRLLE-HGHRVIISYRTEH   62 (260)
T ss_dssp             ---CCCEEESSTTSHHHH-----HHHHHHHH-TTCCEEEEESSCC
T ss_pred             CCCCCEEEEECCCCHHHH-----HHHHHHHH-CCCEEEEEeCChH
Confidence            334689999999999886     67888999 9999999987653

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=82.31  E-value=1.9  Score=33.80  Aligned_cols=67  Identities=12%  Similarity=0.007  Sum_probs=41.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHH-HHHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDA-RKGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~-~~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.++++..... .++..+ ...+..+.+  .+.+ +.+|.|+.|.
T Consensus        74 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl  144 (205)
T 1gwn_A           74 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKSDL  144 (205)
T ss_dssp             SEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECGGG
T ss_pred             EEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEEechhh
Confidence            45779999999643322233334557898888887654 355555 344444443  2344 4599999985

>3r6d_A NAD-dependent epimerase/dehydratase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, veillo parvula; HET: MLZ; 1.25A {Veillonella parvula dsm 2008} PDB: 4hng_A 4hnh_A* 3r14_A*

Probab=82.27  E-value=1.3  Score=34.99  Aligned_cols=38  Identities=13%  Similarity=0.290  Sum_probs=30.5

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHH-HhCCCeEEEEEeCCC
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALA-SKCQLKVGLLDADVY   72 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la-~~~g~~VlliD~D~~   72 (295)
                      .|+|+|.|+++.||+|+     .++..|+ + .|.+|.+++-++.
T Consensus         3 ~mmk~vlVtGasg~iG~-----~~~~~l~~~-~g~~V~~~~r~~~   41 (221)
T 3r6d_A            3 AMYXYITILGAAGQIAQ-----XLTATLLTY-TDMHITLYGRQLK   41 (221)
T ss_dssp             CSCSEEEEESTTSHHHH-----HHHHHHHHH-CCCEEEEEESSHH
T ss_pred             ceEEEEEEEeCCcHHHH-----HHHHHHHhc-CCceEEEEecCcc
Confidence            35788999999999995     5666777 7 8999999987643

>3tpc_A Short chain alcohol dehydrogenase-related dehydro; structural genomics, PSI-biology, NEW YORK structural genomi research consortium; 2.34A {Sinorhizobium meliloti}

Probab=82.06  E-value=1.4  Score=35.78  Aligned_cols=36  Identities=25%  Similarity=0.206  Sum_probs=31.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|++.|+++.||.|+     ++|..|++ .|.+|+++|.+..
T Consensus         7 ~k~~lVTGas~gIG~-----aia~~l~~-~G~~V~~~~r~~~   42 (257)
T 3tpc_A            7 SRVFIVTGASSGLGA-----AVTRMLAQ-EGATVLGLDLKPP   42 (257)
T ss_dssp             TCEEEEESTTSHHHH-----HHHHHHHH-TTCEEEEEESSCC
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEeCChH
Confidence            689999999999996     57788999 9999999987754

>3qiv_A Short-chain dehydrogenase or 3-oxoacyl-[acyl-CARR protein] reductase; structural genomics; 2.25A {Mycobacterium avium subsp}

Probab=82.06  E-value=1.3  Score=35.92  Aligned_cols=37  Identities=30%  Similarity=0.276  Sum_probs=31.2

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      -.+|++.|+++.||.|+     ++|..|++ +|.+|+++|-+.
T Consensus         7 ~~~k~vlITGas~giG~-----~~a~~l~~-~G~~V~~~~r~~   43 (253)
T 3qiv_A            7 FENKVGIVTGSGGGIGQ-----AYAEALAR-EGAAVVVADINA   43 (253)
T ss_dssp             TTTCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             cCCCEEEEECCCChHHH-----HHHHHHHH-CCCEEEEEcCCH
Confidence            34689999999999985     77888999 999999997653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=82.03  E-value=2.5  Score=40.48  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.3

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHH
Q 022525           37 ASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..+..|||||+++-.||..+..
T Consensus       206 L~G~pGtGKT~la~~la~~l~~  227 (758)
T 3pxi_A          206 LIGEPGVGKTAIAEGLAQQIIN  227 (758)
T ss_dssp             EESCTTTTTHHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHHHHHhc
Confidence            3488999999999999999875

>3guy_A Short-chain dehydrogenase/reductase SDR; structural genomics, oxidoreductase, PSI-2, protein structur initiative; 1.90A {Vibrio parahaemolyticus}

Probab=81.98  E-value=0.87  Score=36.41  Aligned_cols=35  Identities=17%  Similarity=0.194  Sum_probs=28.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ||++.|+++.||.|+     .+|..|++ +|.+|+++|-+.
T Consensus         1 Mk~vlVTGas~gIG~-----~~a~~l~~-~G~~V~~~~r~~   35 (230)
T 3guy_A            1 MSLIVITGASSGLGA-----ELAKLYDA-EGKATYLTGRSE   35 (230)
T ss_dssp             --CEEEESTTSHHHH-----HHHHHHHH-TTCCEEEEESCH
T ss_pred             CCEEEEecCCchHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            478899999999886     56778899 999999998664

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=81.97  E-value=1.4  Score=37.21  Aligned_cols=67  Identities=10%  Similarity=-0.036  Sum_probs=41.6

Q ss_pred             CCccEEEEcCCCCCCc-----cchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc-----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGD-----AQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK-----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~-----~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.|+|+|+....     .......+..+|.+++|.+.+. .++..+....+++..     .+.++ .+|+||.|.
T Consensus        50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~pi-ilv~NK~Dl  127 (307)
T 3r7w_A           50 GNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKI-FVLLHKMDL  127 (307)
T ss_dssp             TTEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEE-EEEEECGGG
T ss_pred             CceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeE-EEEEecccc
Confidence            4577999999964321     1222333457899999988765 455666544444432     24454 599999984

>2fwm_X 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; enterobactin, rossman fold, chorismate metabolism, short-CHA oxidoreductase, tetramer; 2.00A {Escherichia coli}

Probab=81.83  E-value=1.5  Score=35.45  Aligned_cols=36  Identities=22%  Similarity=0.239  Sum_probs=30.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+|++.|+++.||.|+     .++..|++ .|.+|+++|-+.
T Consensus         6 ~~k~vlVTGas~giG~-----~ia~~l~~-~G~~V~~~~r~~   41 (250)
T 2fwm_X            6 SGKNVWVTGAGKGIGY-----ATALAFVE-AGAKVTGFDQAF   41 (250)
T ss_dssp             TTCEEEEESTTSHHHH-----HHHHHHHH-TTCEEEEEESCC
T ss_pred             CCCEEEEeCCCcHHHH-----HHHHHHHH-CCCEEEEEeCch
Confidence            3589999999999997     56788999 999999998764

>4dqx_A Probable oxidoreductase protein; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 2.00A {Rhizobium etli}

Probab=81.81  E-value=1.4  Score=36.54  Aligned_cols=38  Identities=26%  Similarity=0.282  Sum_probs=31.7

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ...+|++.|+++.||.|+     ++|..|++ +|.+|+++|.+.
T Consensus        24 ~l~~k~vlVTGas~GIG~-----aia~~l~~-~G~~V~~~~r~~   61 (277)
T 4dqx_A           24 DLNQRVCIVTGGGSGIGR-----ATAELFAK-NGAYVVVADVNE   61 (277)
T ss_dssp             TTTTCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESSH
T ss_pred             CCCCCEEEEECCCcHHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            344699999999999986     67788999 999999998653

>3lyl_A 3-oxoacyl-(acyl-carrier-protein) reductase; alpha and beta protein, NAD(P)-binding rossmann fold, csgid, oxidoreductase; 1.95A {Francisella tularensis subsp} SCOP: c.2.1.2

Probab=81.72  E-value=1.2  Score=35.95  Aligned_cols=36  Identities=28%  Similarity=0.195  Sum_probs=30.7

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+|++.|+++.||.|+     ++|..|++ +|.+|++++-+.
T Consensus         4 ~~k~vlITGas~gIG~-----~~a~~l~~-~G~~v~~~~r~~   39 (247)
T 3lyl_A            4 NEKVALVTGASRGIGF-----EVAHALAS-KGATVVGTATSQ   39 (247)
T ss_dssp             TTCEEEESSCSSHHHH-----HHHHHHHH-TTCEEEEEESSH
T ss_pred             CCCEEEEECCCChHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            3689999999999986     67888999 999999998654

>1fjh_A 3alpha-hydroxysteroid dehydrogenase/carbonyl reductase; short chain dehydrogenase, SDR, xenobiotic, metyrapone, oligomerisation; 1.68A {Comamonas testosteroni} SCOP: c.2.1.2 PDB: 1fk8_A*

Probab=81.64  E-value=1.3  Score=35.96  Aligned_cols=35  Identities=14%  Similarity=0.217  Sum_probs=29.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ||++.|+++.||.|+     +++..|++ +|.+|++++-+.
T Consensus         1 mk~vlVTGas~gIG~-----~~a~~l~~-~G~~V~~~~r~~   35 (257)
T 1fjh_A            1 MSIIVISGCATGIGA-----ATRKVLEA-AGHQIVGIDIRD   35 (257)
T ss_dssp             CCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESSS
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEeCCc
Confidence            478899999999987     56778899 999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=81.61  E-value=0.91  Score=36.19  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=20.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +.+++|+ +..|+||||+.-.|+..+
T Consensus        23 G~~~~lv-GpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVIC-GPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEE-CSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhhC
Confidence            5778776 788999999999887755

>3tzq_B Short-chain type dehydrogenase/reductase; ssgcid, structural genomics, seattle structural genomics CEN infectious disease, oxidoreductase; 2.50A {Mycobacterium marinum} SCOP: c.2.1.0

Probab=81.57  E-value=1.6  Score=35.97  Aligned_cols=37  Identities=24%  Similarity=0.287  Sum_probs=31.4

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+|++.|+++.||.|+     ++|..|++ +|.+|+++|.+..
T Consensus        10 ~~k~vlVTGas~gIG~-----aia~~l~~-~G~~V~~~~r~~~   46 (271)
T 3tzq_B           10 ENKVAIITGACGGIGL-----ETSRVLAR-AGARVVLADLPET   46 (271)
T ss_dssp             TTCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEECTTS
T ss_pred             CCCEEEEECCCcHHHH-----HHHHHHHH-CCCEEEEEcCCHH
Confidence            3689999999999985     67788999 9999999987643

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=81.55  E-value=1.4  Score=34.71  Aligned_cols=67  Identities=12%  Similarity=0.019  Sum_probs=34.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHH-HHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDAR-KGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~-~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+. ..++.+..  .+.++ .+|.|+.|.
T Consensus        80 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  150 (214)
T 2j1l_A           80 KPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPI-IVVGCKTDL  150 (214)
T ss_dssp             EEEEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCE-EEEEECGGG
T ss_pred             EEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEEChhh
Confidence            34678999999643322222333557888888887654 4555554 34444443  24555 499999984

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=81.49  E-value=0.97  Score=35.69  Aligned_cols=30  Identities=17%  Similarity=0.316  Sum_probs=20.4

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      |++ .+..|+||||++..|+.   + .|..+  ||.|
T Consensus         3 I~l-~G~~GsGKsT~a~~L~~---~-~~~~~--i~~d   32 (216)
T 3dl0_A            3 LVL-MGLPGAGKGTQGERIVE---K-YGIPH--ISTG   32 (216)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHH---H-SSCCE--EEHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHH---H-hCCcE--EeHH
Confidence            444 48889999999987764   3 45444  5554

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=81.46  E-value=1.1  Score=34.19  Aligned_cols=20  Identities=35%  Similarity=0.516  Sum_probs=16.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVN   51 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~   51 (295)
                      +.+++++ +..|+||||++..
T Consensus         9 gei~~l~-G~nGsGKSTl~~~   28 (171)
T 4gp7_A            9 LSLVVLI-GSSGSGKSTFAKK   28 (171)
T ss_dssp             SEEEEEE-CCTTSCHHHHHHH
T ss_pred             CEEEEEE-CCCCCCHHHHHHH
Confidence            5778876 7889999999985

>4b79_A PA4098, probable short-chain dehydrogenase; oxidoreductase, infectious disease, structure-based inhibito; HET: NAD; 1.98A {Pseudomonas aeruginosa PAO1}

Probab=81.42  E-value=1.5  Score=35.80  Aligned_cols=36  Identities=25%  Similarity=0.370  Sum_probs=31.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|++.|+++.+|.|+     .+|..|++ .|.+|++.|.|..
T Consensus        11 GK~alVTGas~GIG~-----aia~~la~-~Ga~Vv~~~~~~~   46 (242)
T 4b79_A           11 GQQVLVTGGSSGIGA-----AIAMQFAE-LGAEVVALGLDAD   46 (242)
T ss_dssp             TCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESSTT
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEeCCHH
Confidence            799999999999996     46888999 9999999998754

>3gvc_A Oxidoreductase, probable short-chain type dehydrogenase/reductase; ssgcid, decode, niaid, UWPPG, SBRI, structural genomics; 2.45A {Mycobacterium tuberculosis}

Probab=81.33  E-value=1.3  Score=36.80  Aligned_cols=36  Identities=28%  Similarity=0.231  Sum_probs=31.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+|++.|+++.||.|+     .+|..|++ .|.+|+++|.+.
T Consensus        28 ~gk~vlVTGas~gIG~-----aia~~la~-~G~~V~~~~r~~   63 (277)
T 3gvc_A           28 AGKVAIVTGAGAGIGL-----AVARRLAD-EGCHVLCADIDG   63 (277)
T ss_dssp             TTCEEEETTTTSTHHH-----HHHHHHHH-TTCEEEEEESSH
T ss_pred             CCCEEEEECCCcHHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            4689999999999996     67888999 999999998654

>3lk7_A UDP-N-acetylmuramoylalanine--D-glutamate ligase; agalacitae, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: MSE; 1.50A {Streptococcus agalactiae}

Probab=81.27  E-value=2.3  Score=38.00  Aligned_cols=33  Identities=24%  Similarity=0.261  Sum_probs=27.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      .++|+|++.   .||||++.-+++.|.. .|++|.+.
T Consensus       112 ~~~IaVTGT---nGKTTTt~ml~~iL~~-~g~~~~~~  144 (451)
T 3lk7_A          112 SQLIGITGS---NGKTTTTTMIAEVLNA-GGQRGLLA  144 (451)
T ss_dssp             SEEEEEECS---SCHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             CCEEEEECC---CCHHHHHHHHHHHHHh-cCCCEEEe
Confidence            489999855   5699999999999999 99988553

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=81.21  E-value=0.68  Score=41.05  Aligned_cols=34  Identities=29%  Similarity=0.281  Sum_probs=22.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ..+.++.+-.|+||||++..|+..    .|.  ..||.|.
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~----~~~--~~i~~D~  291 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVS----AGY--VHVNRDT  291 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGG----GTC--EECCGGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh----cCc--EEEccch
Confidence            344455688999999999877643    332  4456554

>3h7a_A Short chain dehydrogenase; oxidoreductase, PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.87A {Rhodopseudomonas palustris}

Probab=81.16  E-value=1.4  Score=35.82  Aligned_cols=35  Identities=17%  Similarity=0.116  Sum_probs=30.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.||.|+     .+|..|++ +|.+|+++|-+.
T Consensus         7 ~k~vlVTGas~GIG~-----aia~~l~~-~G~~V~~~~r~~   41 (252)
T 3h7a_A            7 NATVAVIGAGDYIGA-----EIAKKFAA-EGFTVFAGRRNG   41 (252)
T ss_dssp             SCEEEEECCSSHHHH-----HHHHHHHH-TTCEEEEEESSG
T ss_pred             CCEEEEECCCchHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            689999999999985     67788999 999999998764

>3sc4_A Short chain dehydrogenase (A0QTM2 homolog); ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, structu genomics; 2.50A {Mycobacterium thermoresistibile}

Probab=81.11  E-value=1.4  Score=36.66  Aligned_cols=39  Identities=18%  Similarity=0.244  Sum_probs=32.9

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ...+|++.|+++.||.|+     ++|..|++ +|.+|+++|-+..
T Consensus         6 ~l~~k~vlVTGas~GIG~-----aia~~l~~-~G~~V~~~~r~~~   44 (285)
T 3sc4_A            6 SLRGKTMFISGGSRGIGL-----AIAKRVAA-DGANVALVAKSAE   44 (285)
T ss_dssp             CCTTCEEEEESCSSHHHH-----HHHHHHHT-TTCEEEEEESCCS
T ss_pred             CCCCCEEEEECCCCHHHH-----HHHHHHHH-CCCEEEEEECChh
Confidence            334689999999999996     67888999 9999999988764

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=81.03  E-value=0.91  Score=35.39  Aligned_cols=18  Identities=50%  Similarity=0.567  Sum_probs=14.7

Q ss_pred             EeeCCCCCcHHHHHHHHH
Q 022525           36 VASGKGGVGKSTTAVNLA   53 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA   53 (295)
                      |.++..|+||||+...|.
T Consensus         5 Vi~GPSG~GK~Tl~~~L~   22 (186)
T 1ex7_A            5 VISGPSGTGKSTLLKKLF   22 (186)
T ss_dssp             EEECCTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            457999999999987653

>1ooe_A Dihydropteridine reductase; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics; HET: MES; 1.65A {Caenorhabditis elegans} SCOP: c.2.1.2

Probab=81.02  E-value=1.4  Score=35.32  Aligned_cols=36  Identities=19%  Similarity=0.237  Sum_probs=30.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|++.|+++.||.|+     .++..|++ +|.+|+++|-+..
T Consensus         3 ~k~vlITGas~gIG~-----~~a~~l~~-~G~~V~~~~r~~~   38 (236)
T 1ooe_A            3 SGKVIVYGGKGALGS-----AILEFFKK-NGYTVLNIDLSAN   38 (236)
T ss_dssp             CEEEEEETTTSHHHH-----HHHHHHHH-TTEEEEEEESSCC
T ss_pred             CCEEEEECCCcHHHH-----HHHHHHHH-CCCEEEEEecCcc
Confidence            588999999999885     67788999 9999999987754

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=80.79  E-value=1.5  Score=40.06  Aligned_cols=34  Identities=26%  Similarity=0.293  Sum_probs=25.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +.+.| .+..|+||||++..+|..+    |..++.+++.
T Consensus        78 ~~lLL-~GppGtGKTtla~~la~~l----~~~~i~in~s  111 (516)
T 1sxj_A           78 RAAML-YGPPGIGKTTAAHLVAQEL----GYDILEQNAS  111 (516)
T ss_dssp             SEEEE-ECSTTSSHHHHHHHHHHHT----TCEEEEECTT
T ss_pred             cEEEE-ECCCCCCHHHHHHHHHHHc----CCCEEEEeCC
Confidence            45554 5888999999999776554    7788777654

>3m1a_A Putative dehydrogenase; short, PSI, MCSG, structural genomics, midwest center for structural genomics, protein structure initiative; 2.00A {Streptomyces avermitilis}

Probab=80.77  E-value=1.1  Score=37.06  Aligned_cols=36  Identities=19%  Similarity=0.131  Sum_probs=30.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++|++.|+++.||.|+     +++..|++ +|.+|+++|-+.
T Consensus         4 ~~k~vlVTGas~gIG~-----~~a~~l~~-~G~~V~~~~r~~   39 (281)
T 3m1a_A            4 SAKVWLVTGASSGFGR-----AIAEAAVA-AGDTVIGTARRT   39 (281)
T ss_dssp             CCCEEEETTTTSHHHH-----HHHHHHHH-TTCEEEEEESSG
T ss_pred             CCcEEEEECCCChHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            3689999999999996     67788999 999999998664

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=80.68  E-value=1.6  Score=33.67  Aligned_cols=27  Identities=22%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLK   63 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~   63 (295)
                      ++-|.|. +..|+||||+|..|    .+ +|++
T Consensus        16 G~gvli~-G~SGaGKStlal~L----~~-rG~~   42 (181)
T 3tqf_A           16 KMGVLIT-GEANIGKSELSLAL----ID-RGHQ   42 (181)
T ss_dssp             TEEEEEE-ESSSSSHHHHHHHH----HH-TTCE
T ss_pred             CEEEEEE-cCCCCCHHHHHHHH----HH-cCCe
Confidence            5666665 78899999999855    45 6654

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=80.59  E-value=1.3  Score=35.37  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=19.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +.+++++ +..|+||||+...|+..+
T Consensus        16 G~ii~l~-GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           16 GTLYIVS-APSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHhccC
Confidence            4667665 889999999998776654

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=80.59  E-value=1.3  Score=43.08  Aligned_cols=38  Identities=29%  Similarity=0.332  Sum_probs=31.3

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+.| .+..|+|||++|..|+..+.. .+.+.+.|||...
T Consensus       590 ~vLl-~Gp~GtGKT~lA~~la~~~~~-~~~~~i~i~~~~~  627 (854)
T 1qvr_A          590 SFLF-LGPTGVGKTELAKTLAATLFD-TEEAMIRIDMTEY  627 (854)
T ss_dssp             EEEE-BSCSSSSHHHHHHHHHHHHHS-SGGGEEEECTTTC
T ss_pred             EEEE-ECCCCCCHHHHHHHHHHHhcC-CCCcEEEEechhc
Confidence            4444 588899999999999999988 7889988987644

>1geg_A Acetoin reductase; SDR family, oxidoreductase; HET: GLC NAD; 1.70A {Klebsiella pneumoniae} SCOP: c.2.1.2

Probab=80.53  E-value=1.3  Score=36.04  Aligned_cols=35  Identities=29%  Similarity=0.405  Sum_probs=29.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.||.|+     .++..|++ .|.+|.++|-+.
T Consensus         2 ~k~vlVTGas~gIG~-----~ia~~l~~-~G~~V~~~~r~~   36 (256)
T 1geg_A            2 KKVALVTGAGQGIGK-----AIALRLVK-DGFAVAIADYND   36 (256)
T ss_dssp             CCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEECCCChHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            588999999999996     57788999 999999997653

>2cfc_A 2-(R)-hydroxypropyl-COM dehydrogenase; NAD, oxidoreductase; HET: NAD KPC; 1.8A {Xanthobacter autotrophicus}

Probab=80.52  E-value=1.4  Score=35.55  Aligned_cols=35  Identities=23%  Similarity=0.272  Sum_probs=29.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.||.|+     +++..|++ +|.+|+++|-+.
T Consensus         2 ~k~vlItGasggiG~-----~~a~~l~~-~G~~V~~~~r~~   36 (250)
T 2cfc_A            2 SRVAIVTGASSGNGL-----AIATRFLA-RGDRVAALDLSA   36 (250)
T ss_dssp             CCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCCCchHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            578999999999886     66778899 999999998653

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=80.48  E-value=1.7  Score=41.98  Aligned_cols=35  Identities=17%  Similarity=0.319  Sum_probs=27.7

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      +.++.+..|+|||++.+.+...+.+..+.+|+++-
T Consensus       377 ~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a  411 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCA  411 (802)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEc
Confidence            45566889999999999998877652578888873

>3l77_A Short-chain alcohol dehydrogenase; oxidoreductase; HET: NJP PG4; 1.60A {Thermococcus sibiricus} SCOP: c.2.1.0 PDB: 3tn7_A*

Probab=80.45  E-value=1.4  Score=35.15  Aligned_cols=35  Identities=26%  Similarity=0.333  Sum_probs=29.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.||.|+     ++|..|++ +|.+|++++-+.
T Consensus         2 ~k~vlITGas~gIG~-----~ia~~l~~-~G~~V~~~~r~~   36 (235)
T 3l77_A            2 MKVAVITGASRGIGE-----AIARALAR-DGYALALGARSV   36 (235)
T ss_dssp             CCEEEEESCSSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEECCCcHHHH-----HHHHHHHH-CCCEEEEEeCCH
Confidence            588999999999885     67778899 999999997654

>1dhr_A Dihydropteridine reductase; oxidoreductase(acting on NADH or NADPH); HET: NAD; 2.30A {Rattus norvegicus} SCOP: c.2.1.2 PDB: 1dir_A* 1hdr_A*

Probab=80.38  E-value=1.5  Score=35.34  Aligned_cols=36  Identities=19%  Similarity=0.238  Sum_probs=30.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|++.|+++.||+|+     +++..|++ +|.+|.++|-+..
T Consensus         7 ~k~vlVTGas~gIG~-----~ia~~l~~-~G~~V~~~~r~~~   42 (241)
T 1dhr_A            7 ARRVLVYGGRGALGS-----RCVQAFRA-RNWWVASIDVVEN   42 (241)
T ss_dssp             CCEEEEETTTSHHHH-----HHHHHHHT-TTCEEEEEESSCC
T ss_pred             CCEEEEECCCcHHHH-----HHHHHHHh-CCCEEEEEeCChh
Confidence            588999999999886     56778899 9999999987754

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=80.31  E-value=1.7  Score=37.65  Aligned_cols=35  Identities=31%  Similarity=0.418  Sum_probs=25.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ..|.+ .+..|+|||++|..+|..+    +.+++.+|+..
T Consensus        73 ~~ill-~Gp~GtGKT~la~~la~~l----~~~~~~~~~~~  107 (376)
T 1um8_A           73 SNILL-IGPTGSGKTLMAQTLAKHL----DIPIAISDATS  107 (376)
T ss_dssp             CCEEE-ECCTTSSHHHHHHHHHHHT----TCCEEEEEGGG
T ss_pred             CCEEE-ECCCCCCHHHHHHHHHHHh----CCCEEEecchh
Confidence            34444 4778999999999887654    66777777654

---

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	295
d1ihua2	279	c.37.1.10 (A:308-586) Arsenite-translocating ATPas	4e-35
d1cp2a_	269	c.37.1.10 (A:) Nitrogenase iron protein {Clostridi	9e-35
d1g3qa_	237	c.37.1.10 (A:) Cell division regulator MinD {Archa	2e-34
d2afhe1	289	c.37.1.10 (E:1-289) Nitrogenase iron protein {Azot	7e-33
d1hyqa_	232	c.37.1.10 (A:) Cell division regulator MinD {Archa	8e-31
d1ihua1	296	c.37.1.10 (A:1-296) Arsenite-translocating ATPase	3e-24
d1byia_	224	c.37.1.10 (A:) Dethiobiotin synthetase {Escherichi	2e-21
d1ls1a2	207	c.37.1.10 (A:89-295) GTPase domain of the signal s	3e-06
d1bifa1	213	c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fruct	0.002

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 279

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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

 Score =  126 bits (316), Expect = 4e-35
 Identities = 36/219 (16%), Positives = 66/219 (30%), Gaps = 33/219 (15%)

Query: 26  KIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD-------VYGPSVPM 78
            I   +  + +  GKGGVGK+T A  +AV LA      V L  +D           S+  
Sbjct: 14  DIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADM-GFDVHLTTSDPAAHLSMTLNGSLNN 72

Query: 79  MMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWG 138
           +      P    +     +     K +           +       ++  +  SR +   
Sbjct: 73  LQVSRIDPHEETERYRQHVLETKGKELDEAGKRLLEEDLRSPCTEEIAVFQAFSRVIREA 132

Query: 139 NLDILVIDMPP-------------------------GTGDAQLTTTQTLQLSGALIVSTP 173
               +V+D  P                         G     +   Q  + +  L+V+ P
Sbjct: 133 GKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGHFTTPMMLLQDPERTKVLLVTLP 192

Query: 174 QDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSE 212
           +   +++A        +  +   G + N S  I    S 
Sbjct: 193 ETTPVLEAANLQADLERAGIHPWGWIINNSLSIADTRSP 231

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]} Length = 269

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: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

 Score =  125 bits (313), Expect = 9e-35
 Identities = 37/253 (14%), Positives = 79/253 (31%), Gaps = 17/253 (6%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
            +A+  GKGG+GKSTT  NL   L +     + ++  D    S  +++    +  V   +
Sbjct: 3   QVAI-YGKGGIGKSTTTQNLTSGLHAM-GKTIMVVGCDPKADSTRLLLGGLAQKSVLDTL 60

Query: 93  KMVPIENYGVKCMSMGFLVPSSSP---------VVWRGPMVMSALRKMSREVDWGNLDIL 143
           +    +      +  G+                   RG +    + +        +LD +
Sbjct: 61  REEGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAY-TDDLDYV 119

Query: 144 VIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMS 203
             D+                 +  + +    ++  + A   I+   +      G+     
Sbjct: 120 FYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGI 179

Query: 204 CFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVS 263
                  +    +         A E+G ++I  +P    + K   +   V+   P    +
Sbjct: 180 ICNSRKVANEYELL-----DAFAKELGSQLIHFVPRSPMVTKAEINKQTVIEYDPTCEQA 234

Query: 264 RAYGEVAVNVVNR 276
             Y E+A  V   
Sbjct: 235 EEYRELARKVDAN 247

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 237

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: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score =  123 bits (308), Expect = 2e-34
 Identities = 47/251 (18%), Positives = 95/251 (37%), Gaps = 19/251 (7%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
           +I++ SGKGG GK+T   NL+VAL  + + KV  +D D+   ++ +++ +D       D+
Sbjct: 4   IISIVSGKGGTGKTTVTANLSVALGDRGR-KVLAVDGDLTMANLSLVLGVDDPDVTLHDV 62

Query: 93  KM--VPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPG 150
                 +E+           V   +                  +      D ++ID P G
Sbjct: 63  LAGEANVEDAIYMTQFDNVYVLPGAVDWEHVLKADPRKLPEVIKSLKDKFDFILIDCPAG 122

Query: 151 TGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHC 210
                           A+      + AL+     I+  +      + L +     +    
Sbjct: 123 LQL------------DAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVL 170

Query: 211 SEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVA 270
           +                 M + ++  IP +  IR+G+ +G+P V   P+S  ++A+ ++A
Sbjct: 171 NRYGRSDRDIPPEAAEDVMEVPLLAVIPEDPAIREGTLEGIPAVKYKPESKGAKAFVKLA 230

Query: 271 VNVVNRLQELA 281
                 +++LA
Sbjct: 231 ----EEIEKLA 237

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]} Length = 289

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: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

 Score =  120 bits (301), Expect = 7e-33
 Identities = 43/255 (16%), Positives = 84/255 (32%), Gaps = 19/255 (7%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV---- 88
             A+  GKGG+GKSTT  NL  ALA     KV ++  D    S  +++    +  +    
Sbjct: 4   QCAI-YGKGGIGKSTTTQNLVAALAEM-GKKVMIVGCDPKADSTRLILHSKAQNTIMEMA 61

Query: 89  TKDMKMVPIENYGVKCMSMGFL--VPSSSP-----VVWRGPMVMSALRKMSREVDWGNLD 141
            +   +  +E   V     G +  V S  P        RG +      +     +     
Sbjct: 62  AEAGTVEDLELEDVLKAGYGGVKCVESGGPEPGVGCAGRGVITAINFLEEEGAYEDDLDF 121

Query: 142 ILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVEN 201
           +    +            +  +     IV + + +A+  A        K           
Sbjct: 122 VFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAANNISKGIVKYANS------G 175

Query: 202 MSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDST 261
                   C+  +           A ++G ++I  +P +  +++     + V+   P + 
Sbjct: 176 SVRLGGLICNSRNTDREDELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTVIEYDPKAK 235

Query: 262 VSRAYGEVAVNVVNR 276
            +  Y  +A  VV+ 
Sbjct: 236 QADEYRALARKVVDN 250

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 232

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: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score =  113 bits (283), Expect = 8e-31
 Identities = 51/238 (21%), Positives = 97/238 (40%), Gaps = 12/238 (5%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM 92
            I VASGKGG GK+T   NL VALA      V ++DAD+   ++ +++ ++  P   +++
Sbjct: 3   TITVASGKGGTGKTTITANLGVALAQLGH-DVTIVDADITMANLELILGMEGLPVTLQNV 61

Query: 93  KMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTG 152
                       +  G +      VV  G  +    +    +++       V+     + 
Sbjct: 62  LAGEARIDEAIYVGPGGV-----KVVPAGVSLEGLRKANPEKLED------VLTQIMEST 110

Query: 153 DAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSE 212
           D  L          A+I        L+     I+  +      +      +  +    + 
Sbjct: 111 DILLLDAPAGLERSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNR 170

Query: 213 PSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVA 270
            + +  +   +   A +  KVIG IP + ++R+ +  G PVV+ +P+S  +RA  E+A
Sbjct: 171 ITTLGIEMAKNEIEAILEAKVIGLIPEDPEVRRAAAYGKPVVLRSPNSPAARAIVELA 228

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 296

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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

 Score = 97.4 bits (241), Expect = 3e-24
 Identities = 27/255 (10%), Positives = 63/255 (24%), Gaps = 60/255 (23%)

Query: 34  IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD-------VYGPSVP--------- 77
               +GKGGVGK++ +   A+ LA +   +V L+  D       V+  ++          
Sbjct: 10  YLFFTGKGGVGKTSISCATAIRLAEQ-GKRVLLVSTDPASNVGQVFSQTIGNTIQAIASV 68

Query: 78  -----MMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMS 132
                + +      +  +   + PI+      +        S                ++
Sbjct: 69  PGLSALEIDPQAAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLT 128

Query: 133 REVDWGNLDILVIDMPPGTG--------------------------------------DA 154
                   D ++ D  P                                           
Sbjct: 129 DASLLTRFDHIIFDTAPTGHTIRLLQLPGAWSSFIDSNPEGASCLGPMAGLEKQREQYAY 188

Query: 155 QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPS 214
            +      + +  ++V+  Q   L +  +     + + +    LV N         ++  
Sbjct: 189 AVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVLPKTEAANDTL 248

Query: 215 FIFGKGGTHRTAAEM 229
                       A +
Sbjct: 249 AAAIWEREQEALANL 263

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]} Length = 224

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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

 Score = 88.2 bits (217), Expect = 2e-21
 Identities = 24/214 (11%), Positives = 60/214 (28%), Gaps = 14/214 (6%)

Query: 42  GVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVP----- 96
            VGK+  +  L  A  +    +         G         +      +    +      
Sbjct: 12  EVGKTVASCALLQAAKAA-GYRTAGYKPVASGSEKTPEGLRNSDALALQRNSSLQLDYAT 70

Query: 97  IENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL 156
           +  Y     +   ++ +         ++ + LR + ++ DW  ++       P +     
Sbjct: 71  VNPYTFAEPTSPHIISAQEGRPIESLVMSAGLRALEQQADWVLVEGAGGWFTPLSDTFTF 130

Query: 157 TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFI 216
               T +    ++V   +   +  A     +     + + G V N         +E    
Sbjct: 131 ADWVTQEQLPVILVVGVKLGCINHAMLTAQVIQHAGLTLAGWVANDVTPPGKRHAE---- 186

Query: 217 FGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDG 250
                       +   ++GEIP   +  + +  G
Sbjct: 187 ----YMTTLTRMIPAPLLGEIPWLAENPENAATG 216

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 207

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 sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

 Score = 44.7 bits (105), Expect = 3e-06
 Identities = 29/183 (15%), Positives = 65/183 (35%), Gaps = 15/183 (8%)

Query: 23  KDLKIDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKI 82
             L +   +++  +  G  G GK+TTA  LA+    K + +  L+ AD   P+    +++
Sbjct: 2   ARLPVLKDRNLWFLV-GLQGSGKTTTAAKLALYYKGKGR-RPLLVAADTQRPAAREQLRL 59

Query: 83  DQK------PEVTKDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVD 136
             +       EV        I     +   +            R  +    + +++R  +
Sbjct: 60  LGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKE 119

Query: 137 WGNLDILVIDMPPGTGDAQLTTTQT----LQLSGALIVSTPQDVALIDARKGITMFSKVQ 192
               D +++ +   TG   L+  +     + ++G ++     D     A   ++      
Sbjct: 120 VLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAA---LSARHVTG 176

Query: 193 VPI 195
            PI
Sbjct: 177 KPI 179

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 213

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 36.9 bits (84), Expect = 0.002
 Identities = 11/118 (9%), Positives = 21/118 (17%), Gaps = 4/118 (3%)

Query: 33  VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSV---PMMMKIDQKPEVT 89
            + V  G    GK+  +  L   L     +     +   Y   +       +        
Sbjct: 3   TLIVMVGLPARGKTYISKKLTRYLNFI-GVPTREFNVGQYRRDMVKTYKSFEFFLPDNEE 61

Query: 90  KDMKMVPIENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDM 147
                       +  +            V+         R M       N        
Sbjct: 62  GLKIRKQCALAALNDVRKFLSEEGGHVAVFDATNTTRERRAMIFNFGEQNGYKTFFVE 119

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	295
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	100.0
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	100.0
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	100.0
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	100.0
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	99.89
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	99.87
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	99.85
d1ls1a2	207	GTPase domain of the signal sequence recognition p	99.2
d1okkd2	207	GTPase domain of the signal recognition particle r	99.13
d2qy9a2	211	GTPase domain of the signal recognition particle r	99.11
d1vmaa2	213	GTPase domain of the signal recognition particle r	99.03
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.99
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.75
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.54
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.45
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.35
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	98.2
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.18
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.92
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.86
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.68
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.6
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	97.26
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.24
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.24
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.17
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.16
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	97.15
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	97.12
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.09
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.09
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	96.9
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	96.87
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.83
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.82
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	96.8
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.74
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.73
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	96.72
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.69
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	96.65
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.64
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.63
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.63
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.62
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.58
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.57
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.54
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.51
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.5
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.47
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.42
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.39
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.37
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.34
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	96.31
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.3
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.28
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.28
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	96.28
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.27
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	96.27
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.22
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.11
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	96.11
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.01
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.98
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.86
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.86
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	95.86
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.81
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.78
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.71
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.7
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.64
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	95.61
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.6
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.58
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.5
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	95.48
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.39
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	95.38
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.37
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	95.32
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.32
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.27
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.07
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.06
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.83
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.75
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	94.66
d1e8ca3	234	UDP-N-acetylmuramyl tripeptide synthetase MurE {Es	94.65
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	94.64
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.41
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.4
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	94.36
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.24
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	94.09
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.09
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	93.97
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	93.88
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.83
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	93.73
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	93.58
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.56
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	93.52
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.46
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.43
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	93.29
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	93.19
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.13
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.08
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.06
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.04
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	92.94
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.91
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	92.63
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	92.5
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	92.41
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	92.37
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	92.25
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	92.12
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.1
d1s1ma2	266	CTP synthase PyrG, N-terminal domain {Escherichia	92.08
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	91.96
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	91.82
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	91.75
d2gc6a2	296	Folylpolyglutamate synthetase {Lactobacillus casei	91.74
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	91.51
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	91.39
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	91.2
d1o5za2	296	Folylpolyglutamate synthetase {Thermotoga maritima	91.19
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	91.17
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	90.94
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	90.88
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	90.72
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	90.63
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	90.42
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	90.12
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	89.83
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	89.82
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	89.66
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	89.52
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	89.49
d2jfga3	204	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	89.4
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	89.25
d1fjha_	257	3-alpha-hydroxysteroid dehydrogenase {Comamonas te	89.1
d2jfga1	93	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	88.93
d2g0ta1	338	Hypothetical protein TM0796 {Thermotoga maritima [	88.83
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	88.65
d1j6ua3	207	UDP-N-acetylmuramate-alanine ligase MurC {Thermoto	88.54
d1gg4a4	214	UDP-murNac-tripeptide D-alanyl-D-alanine-adding en	88.44
d1p3da3	215	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	88.3
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	88.17
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	88.08
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	88.07
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	88.04
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	87.97
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	87.86
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	87.67
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	87.43
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	87.41
d2gdza1	254	15-hydroxyprostaglandin dehydrogenase, PGDH {Human	87.28
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	87.01
d2o23a1	248	Type II 3-hydroxyacyl-CoA dehydrogenase {Human (Ho	86.97
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	86.77
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	86.63
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	86.61
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	86.44
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	86.39
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	86.03
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	86.01
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	85.61
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	85.5
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	85.13
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	85.0
d2d1ya1	248	Hypothetical protein TTHA0369 {Thermus thermophilu	84.91
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	84.67
d1xg5a_	257	Putative dehydrogenase ARPG836 (MGC4172) {Human (H	84.43
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	84.43
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	84.42
d1dhra_	236	Dihydropteridin reductase (pteridine reductase) {R	84.22
d1pr9a_	244	Carbonyl reductase {Human (Homo sapiens) [TaxId: 9	84.05
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	83.94
d1w6ua_	294	2,4-dienoyl-CoA reductase, mitochondrial (DECR) {H	83.88
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	83.8
d1i0za1	160	Lactate dehydrogenase {Human (Homo sapiens), heart	83.8
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	83.6
d2ew8a1	247	(s)-1-phenylethanol dehydrogenase {Azoarcus sp. eb	83.53
d1h5qa_	260	Mannitol dehydrogenase {Mushroom (Agaricus bisporu	83.39
d2vo1a1	273	CTP synthase PyrG, N-terminal domain {Human (Homo	83.34
d2ae2a_	259	Tropinone reductase {Jimsonweed (Datura stramonium	83.19
d1zema1	260	Xylitol dehydrogenase {Gluconobacter oxydans [TaxI	83.09
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	83.04
d1luaa1	191	Methylene-tetrahydromethanopterin dehydrogenase {M	82.99
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	82.91
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	82.87
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	82.87
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	82.66
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	82.56
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	82.41
d1k2wa_	256	Sorbitol dehydrogenase {Rhodobacter sphaeroides [T	82.17
d1xkqa_	272	Hypothetical protein R05D8.7 {Caenorhabditis elega	82.16
d1jaya_	212	Coenzyme F420H2:NADP+ oxidoreductase (FNO) {Archae	82.09
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	81.96
d2bgka1	268	Rhizome secoisolariciresinol dehydrogenase {Mayapp	81.94
d1ydea1	250	Retinal dehydrogenase/reductase 3 {Human (Homo sap	81.81
d1yb1a_	244	17-beta-hydroxysteroid dehydrogenase type XI {Huma	81.72
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	81.72
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	81.71
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	81.7
d1gz6a_	302	(3R)-hydroxyacyl-CoA dehydrogenase domain of estra	81.66
d1ulsa_	242	beta-keto acyl carrier protein reductase {Thermus	81.57
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	81.56
d2hmva1	134	Ktn bsu222 {Bacillus subtilis [TaxId: 1423]}	81.44
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	81.44
d1uaya_	241	Type II 3-hydroxyacyl-CoA dehydrogenase {Thermus t	81.43
d1iy8a_	258	Levodione reductase {Corynebacterium aquaticum [Ta	81.43
d1q7ba_	243	beta-keto acyl carrier protein reductase {Escheric	81.37
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	81.3
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	81.2
d2rhca1	257	beta-keto acyl carrier protein reductase {Streptom	80.82
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	80.75
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	80.49
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	80.34
d1vl8a_	251	Gluconate 5-dehydrogenase {Thermotoga maritima [Ta	80.33
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	80.29
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	80.24
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	80.03
d1hdca_	254	3-alpha,20-beta-hydroxysteroid dehydrogenase {Stre	80.03
d1vcoa2	272	CTP synthase PyrG, N-terminal domain {Thermus ther	80.02
d1nffa_	244	Putative oxidoreductase Rv2002 {Mycobacterium tube	80.01

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

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: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=2.5e-38  Score=262.24  Aligned_cols=223  Identities=27%  Similarity=0.387  Sum_probs=180.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccccc--------CcccccccCCc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKD--------MKMVPIENYGV  102 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~--------~~~~~~~~~~~  102 (295)
                      ||+|+|+|+||||||||+|+|||.+||+ +|++|++||+|+++++++.++|.++.......        .........++
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la~-~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALAQ-LGHDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYVGPGGV   79 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHHH-TTCCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEECGGGC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHhCCCcCcchhhhhhccccccccccccCCccc
Confidence            6999999999999999999999999999 99999999999999999999998764332211        11112223344


Q ss_pred             eeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHH
Q 022525          103 KCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDAR  182 (295)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~  182 (295)
                      .+++.+      .............+..+++.++ ..||+||+|+||+++  ......+..+|.+++|+.++..++..+.
T Consensus        80 ~~l~~~------~~~~~~~~~~~~~l~~~l~~l~-~~~D~viiD~~~~~~--~~~~~~l~~ad~v~~v~~~~~~~~~~~~  150 (232)
T d1hyqa_          80 KVVPAG------VSLEGLRKANPEKLEDVLTQIM-ESTDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITDGL  150 (232)
T ss_dssp             EEEECC------SCHHHHHHHCHHHHHHHHHHHH-HTCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHHHH
T ss_pred             eeEeee------cccccccccchhhHHHHHHHHh-hccceeeeccccccc--chhHHHhhhhheeeeeccccccchhhhh
Confidence            444432      2211122233567888888888 899999999999998  5566677789999999999999999999


Q ss_pred             HHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChH
Q 022525          183 KGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTV  262 (295)
Q Consensus       183 ~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~  262 (295)
                      +.+..+++.+.+++++|+|+++..       ..   ....+++.+.++.++++.||+++.+.++...|+|+.++.|++++
T Consensus       151 ~~~~~~~~~~~~~~~iv~N~~~~~-------~~---~~~~~~i~~~~~~~~~~~IP~d~~~~~a~~~g~p~~~~~p~s~~  220 (232)
T d1hyqa_         151 KTKIVAERLGTKVLGVVVNRITTL-------GI---EMAKNEIEAILEAKVIGLIPEDPEVRRAAAYGKPVVLRSPNSPA  220 (232)
T ss_dssp             HHHHHHHHHTCEEEEEEEEEECTT-------TH---HHHHHHHHHHTTSCEEEEEECCHHHHHHHHHTSCHHHHCTTSHH
T ss_pred             hhhhhhhhcccccccccccccccc-------cc---cchhhhHHhhcCCeEEEECCCCHHHHHHHHCCceEEEECCCCHH
Confidence            999999999999999999998631       11   12356788889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 022525          263 SRAYGEVAVNV  273 (295)
Q Consensus       263 ~~~~~~l~~~l  273 (295)
                      +++|++||++|
T Consensus       221 a~~~~~lA~~i  231 (232)
T d1hyqa_         221 ARAIVELANYI  231 (232)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999987

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

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: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=100.00  E-value=1.5e-37  Score=258.25  Aligned_cols=226  Identities=23%  Similarity=0.292  Sum_probs=174.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCcccc-cc--------CcccccccC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVT-KD--------MKMVPIENY  100 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~-~~--------~~~~~~~~~  100 (295)
                      |+|+|+|+|.||||||||+|+|||.+||+ +|++|++||+|+++++++.++|........ +.        .........
T Consensus         1 m~~vIav~~~kGGvGKTtia~nLA~~la~-~g~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~   79 (237)
T d1g3qa_           1 MGRIISIVSGKGGTGKTTVTANLSVALGD-RGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFD   79 (237)
T ss_dssp             CCEEEEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSST
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHh-CCCCEEEEeCCCCCCChhHHhCCCCcccchhhhccCCCcHHHhhhccccc
Confidence            57999999999999999999999999999 999999999999999999999866543211 11        001111111


Q ss_pred             CceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHH
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALID  180 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~  180 (295)
                      +....+      ...............+..++..++ +.||+||+|++|+++  ......+..+|.+++|+.++..++..
T Consensus        80 ~~~~~~------~~~~~~~~~~~~~~~~~~~~~~l~-~~~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~~~s~~~  150 (237)
T d1g3qa_          80 NVYVLP------GAVDWEHVLKADPRKLPEVIKSLK-DKFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPEISCLTD  150 (237)
T ss_dssp             TEEEEC------CCCSHHHHHHCCGGGHHHHHHTTG-GGCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSCHHHHHH
T ss_pred             cccccc------cccchhhhhhhhhHHHHHHHHHHH-hcCCEEEEccccccc--ccchhhhhhhhcccccccccceecch
Confidence            111111      111111111112345677888888 899999999999998  56667788999999999999999999


Q ss_pred             HHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCC
Q 022525          181 ARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDS  260 (295)
Q Consensus       181 ~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s  260 (295)
                      +.+.++.+++.+.++.++|+||++....       .   .......+..+.++.+.||+++.+.++...|+|+++++|++
T Consensus       151 ~~~~~~~~~~~~~~~~giv~N~~~~~~~-------~---~~~~~~~~~~~~~~~~~IP~d~~v~~a~~~g~~v~~~~p~s  220 (237)
T d1g3qa_         151 TMKVGIVLKKAGLAILGFVLNRYGRSDR-------D---IPPEAAEDVMEVPLLAVIPEDPAIREGTLEGIPAVKYKPES  220 (237)
T ss_dssp             HHHHHHHHHHTTCEEEEEEEEEETSCTT-------C---CCHHHHHHHHCSCEEEEEECCHHHHHHHHHTSCHHHHSTTS
T ss_pred             hhHHHHHHhhhhhhhhhhhhcccccccc-------h---hhhHHHHhhcCceEEEEeCCCHHHHHHHHcCceEEEECCCC
Confidence            9999999999999999999999973211       1   11334444568899999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHH
Q 022525          261 TVSRAYGEVAVNVVN  275 (295)
Q Consensus       261 ~~~~~~~~l~~~l~~  275 (295)
                      +++++|++|+++|++
T Consensus       221 ~~a~~~~~la~~i~~  235 (237)
T d1g3qa_         221 KGAKAFVKLAEEIEK  235 (237)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999999875

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

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: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=100.00  E-value=5.2e-36  Score=253.80  Aligned_cols=232  Identities=19%  Similarity=0.189  Sum_probs=172.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC----------cccccccC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM----------KMVPIENY  100 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~----------~~~~~~~~  100 (295)
                      ||+|+|+| ||||||||+|+|||+.||+ .|+||++||+|+|++++..++|........+..          .+......
T Consensus         1 mr~Iai~g-KGGvGKTT~a~nLA~~LA~-~G~rVllID~D~q~~~t~~ll~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~   78 (269)
T d1cp2a_           1 MRQVAIYG-KGGIGKSTTTQNLTSGLHA-MGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYG   78 (269)
T ss_dssp             CEEEEEEE-CTTSSHHHHHHHHHHHHHT-TTCCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHHHCEECGG
T ss_pred             CCEEEEEC-CCcCCHHHHHHHHHHHHHh-CCCcEEEEecCCCCCchhhhhCCCcccchhhhhhhcccccccceEEEecCC
Confidence            68999976 9999999999999999999 999999999999998888888877765544321          11122223


Q ss_pred             CceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch-hhhhhccCceEEEeeCCCcchHH
Q 022525          101 GVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL-TTTQTLQLSGALIVSTPQDVALI  179 (295)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~-~~~~l~~ad~viiv~~~~~~s~~  179 (295)
                      .+..++.+........ ..........+.+.+..+. +.|||||+||||+.+.... .......||.+++|+.++..++.
T Consensus        79 ~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~l~~l~-~~~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~~~~sl~  156 (269)
T d1cp2a_          79 GIRCVESGGPEPGVGC-AGRGIITSINMLEQLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALY  156 (269)
T ss_dssp             GCEEEECCCCCTTSSC-HHHHHHHHHHHHHHTTCCC-TTCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHH
T ss_pred             ceEEeccCcchhhhhh-cccchHHHHHHHHHHHHhh-ccCCEEEeccCCccchhHHHHHHHhhccCceeeccchhhhHHH
Confidence            3444443322211111 1111122334455556666 8999999999998764322 22333468999999999999999


Q ss_pred             HHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEE
Q 022525          180 DARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVI  255 (295)
Q Consensus       180 ~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~  255 (295)
                      .+.++++.++.    .+.++.++|+|+++...          ..+..+++.+.+|.++++.||+++.+.++...|+|+++
T Consensus       157 ~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~----------~~~~~~~~~~~~~~~~~~~IP~d~~i~~a~~~g~~v~~  226 (269)
T d1cp2a_         157 AANNISKGIQKYAKSGGVRLGGIICNSRKVAN----------EYELLDAFAKELGSQLIHFVPRSPMVTKAEINKQTVIE  226 (269)
T ss_dssp             HHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC----------CHHHHHHHHHHHTCCEEEEECCCHHHHHHHHTTSCHHH
T ss_pred             HHHHHHHHHHhhccccceeccceEEeeecCCC----------ccchhhhhHhhcCCeEEEEEecCHHHHHHHHCCCCeEE
Confidence            88888777764    34567889999976321          12457788889999999999999999999999999999


Q ss_pred             cCCCChHHHHHHHHHHHHHHH
Q 022525          256 SAPDSTVSRAYGEVAVNVVNR  276 (295)
Q Consensus       256 ~~~~s~~~~~~~~l~~~l~~~  276 (295)
                      +.|+|+++++|++||++|++.
T Consensus       227 ~~p~s~~a~~~~~La~~i~~~  247 (269)
T d1cp2a_         227 YDPTCEQAEEYRELARKVDAN  247 (269)
T ss_dssp             HCTTSHHHHHHHHHHHHHHHC
T ss_pred             ECcCCHHHHHHHHHHHHHHcC
Confidence            999999999999999999764

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

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: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=100.00  E-value=4.4e-36  Score=256.86  Aligned_cols=234  Identities=21%  Similarity=0.227  Sum_probs=170.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccC------------cccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDM------------KMVPIE   98 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~------------~~~~~~   98 (295)
                      ||+|+| |+||||||||+|+|||++||+ +|+|||+||+|+|++++..++|...+....+..            .+.+..
T Consensus         2 Mr~Iai-sgKGGVGKTT~a~NLA~~LA~-~G~rVLlID~DpQ~~st~~~l~~~~~~~~~~~~~~~~~~~d~~~~~v~~~~   79 (289)
T d2afhe1           2 MRQCAI-YGKGGIGKSTTTQNLVAALAE-MGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAG   79 (289)
T ss_dssp             CEEEEE-EECTTSSHHHHHHHHHHHHHH-TTCCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHCEEC
T ss_pred             ccEEEE-ECCCCCCHHHHHHHHHHHHHH-CCCCEEEEecCCCCCcchhhcCCCCCCchhhhhhccCcccccccceeEecc
Confidence            689998 569999999999999999999 999999999999998887777766554332211            112222


Q ss_pred             cCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhh-hhhccCceEEEeeCCCcch
Q 022525           99 NYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTT-TQTLQLSGALIVSTPQDVA  177 (295)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~-~~l~~ad~viiv~~~~~~s  177 (295)
                      ..++..++.+........ ..........+...+..+. +.||||||||||+++...... .....+|.+++|+.++..+
T Consensus        80 ~~~i~~i~~~~~~~~~~~-~~~~~~~~~~l~~~l~~~~-~~~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~~~~s  157 (289)
T d2afhe1          80 YGGVKCVESGGPEPGVGC-AGRGVITAINFLEEEGAYE-DDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMA  157 (289)
T ss_dssp             GGGCEEEECCCCCTTTCC-HHHHHHHHHHHHHHTTCSS-TTCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHH
T ss_pred             cccceeeccCCchhhhhh-hhcchHHHHHHHHHHHHhh-ccCCeEeeccCCccCHHHHHHHHHhhccceeecccchhHHH
Confidence            333444443221111110 0011112234555555566 899999999999886433221 2223689999999999999


Q ss_pred             HHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCce
Q 022525          178 LIDARKGITMFSK----VQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPV  253 (295)
Q Consensus       178 ~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i  253 (295)
                      +.++.+.++.+.+    .+.++.|+|+|+++..      .    ..+..+++++.+|.++++.||++..+.+|...|+|+
T Consensus       158 ~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~------~----~~~~~~~~~~~~g~~vl~~IP~~~~v~eA~~~g~pv  227 (289)
T d2afhe1         158 MYAANNISKGIVKYANSGSVRLGGLICNSRNTD------R----EDELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTV  227 (289)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCT------T----HHHHHHHHHHHHTSCEEEEECCCHHHHHHHHTTSCH
T ss_pred             HHHHHHHHHHHHhhhhcccccccceeehhhcch------h----hHHHHHHHHHHcCCeEEEEEeccHHHHHHHHcCCce
Confidence            9988888877654    3466788999987521      1    124477888999999999999999999999999999


Q ss_pred             EEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          254 VISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       254 ~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                      +++.|+|+++++|++||++|+++.+
T Consensus       228 ~~~~p~S~~a~~y~~LA~ei~e~~~  252 (289)
T d2afhe1         228 IEYDPKAKQADEYRALARKVVDNKL  252 (289)
T ss_dssp             HHHCTTSHHHHHHHHHHHHHHHCCC
T ss_pred             EEECcCCHHHHHHHHHHHHHHcCCC
Confidence            9999999999999999999997553

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=99.89  E-value=9.4e-24  Score=180.00  Aligned_cols=174  Identities=16%  Similarity=0.135  Sum_probs=105.4

Q ss_pred             cCCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcc--------cc--
Q 022525           27 IDGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKM--------VP--   96 (295)
Q Consensus        27 ~~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~--------~~--   96 (295)
                      ++.++++| |+|+||||||||+|+|||.+||+ +|+||++||+|+|+ +++..||.+...........        .+  
T Consensus         4 ~~~~p~~i-~~sGKGGVGKTTvaa~lA~~lA~-~G~rVLlvD~Dp~~-~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~   80 (296)
T d1ihua1           4 LQNIPPYL-FFTGKGGVGKTSISCATAIRLAE-QGKRVLLVSTDPAS-NVGQVFSQTIGNTIQAIASVPGLSALEIDPQA   80 (296)
T ss_dssp             GSSCCSEE-EEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTTC-CHHHHTTSCCCSSCEECTTSTTEEEEECCHHH
T ss_pred             CCCCCeEE-EEECCCcChHHHHHHHHHHHHHH-CCCCEEEEeCCCCC-CHHHHhCCCCcccccccccccccchhccChhh
Confidence            34456666 56899999999999999999999 99999999999985 78888887643221111000        00  


Q ss_pred             -------cccCCceeecccc----ccCCCCCCccCCchHHHHHHHHHHhcc-CCCccEEEEcCCCCCCccchhhhhhc--
Q 022525           97 -------IENYGVKCMSMGF----LVPSSSPVVWRGPMVMSALRKMSREVD-WGNLDILVIDMPPGTGDAQLTTTQTL--  162 (295)
Q Consensus        97 -------~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~l~-~~~yD~iiiD~~~~~~~~~~~~~~l~--  162 (295)
                             ....+........    +.................+...+.... ..+||+||+||||+.+.  .....+.  
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yD~iviD~pp~~~~--l~~~~l~~~  158 (296)
T d1ihua1          81 AAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDASLLTRFDHIIFDTAPTGHT--IRLLQLPGA  158 (296)
T ss_dssp             HHHHHHHHHHGGGTTTSCHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHCTTHHHHCSEEEESSCCCHHH--HHHHHCGGG
T ss_pred             HHHHHHhhccchhhhcccccchhhhHHhhhhhhhhhHHHHHHHHHHHHHhhhcccceEEEeccCCCchH--HHHHhHHHH
Confidence                   0000000000000    000000000000001112222222111 16799999999997551  1111110  


Q ss_pred             --------------------------------------cCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEecccc
Q 022525          163 --------------------------------------QLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       163 --------------------------------------~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~  204 (295)
                                                            ..+.+++|+.|+..++.++.+.++.+.+.+++..++|+||+.
T Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~lVt~pe~~~~~~~~r~~~~l~~~gi~~~~vVvN~v~  238 (296)
T d1ihua1         159 WSSFIDSNPEGASCLGPMAGLEKQREQYAYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVL  238 (296)
T ss_dssp             GTCCC------CCCCGGGGGCCSCHHHHHHHHHHHHCTTTEEEEEEEESCHHHHHHHHHHHHHHHHHTCCCEEEEEEEEC
T ss_pred             HHHHHhhccchhhhcccccchhHHHHHHHHHHhhccCcccceeeEecCcchhHHHHHHHHHHHHHhcCCCceEEEEcCCc
Confidence                                                  123579999999999999999999999999999999999986


Q ss_pred             C
Q 022525          205 F  205 (295)
Q Consensus       205 ~  205 (295)
                      +
T Consensus       239 p  239 (296)
T d1ihua1         239 P  239 (296)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=99.87  E-value=3.2e-23  Score=175.33  Aligned_cols=173  Identities=18%  Similarity=0.192  Sum_probs=101.4

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccc-----------
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVP-----------   96 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~-----------   96 (295)
                      .+.++.|.|+|+||||||||+|+|||++||+ +|+||++||+|+|+ +++.+||...............           
T Consensus        16 ~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~-~G~rVllvD~Dp~~-~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (279)
T d1ihua2          16 ARNEHGLIMLMGKGGVGKTTMAAAIAVRLAD-MGFDVHLTTSDPAA-HLSMTLNGSLNNLQVSRIDPHEETERYRQHVLE   93 (279)
T ss_dssp             HTTSCEEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEESCCC------------CCEEEEECCHHHHHHHHHHHHHH
T ss_pred             hcCCCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCcEEEEeCCCCC-ChHHHhCCccccccccccccchhhHHHHHhhhh
Confidence            3446777788899999999999999999999 99999999999985 6777787665433222111000           


Q ss_pred             cccCCceeeccccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc---------------------
Q 022525           97 IENYGVKCMSMGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ---------------------  155 (295)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~---------------------  155 (295)
                      ........  .+...... ...............+...+....||++++|+||+.....                     
T Consensus        94 ~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~d~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  170 (279)
T d1ihua2          94 TKGKELDE--AGKRLLEE-DLRSPCTEEIAVFQAFSRVIREAGKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGH  170 (279)
T ss_dssp             HHHTTCCH--HHHHHHHH-HTTSHHHHHHHHHHHHTTTGGGGGTSEEEESCCCCHHHHHHHHHC----------------
T ss_pred             cccccccc--cccccchh-hhcccchHHHHHHHHHHHHHhhcccccccccCCCchhHHHHHHHHHHHHhhHHHHhcchhh
Confidence            00000000  00000000 0000001111122223333333679999999998632110                     


Q ss_pred             ----hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          156 ----LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       156 ----~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                          ........++.+++|+.|+..++.++.+.++.+.+.+.+..++|+||+..
T Consensus       171 ~~~~~~~~~~~~~~~~vlV~~p~~~~~~~~~r~~~~l~~~~~~~~~iV~N~~~~  224 (279)
T d1ihua2         171 FTTPMMLLQDPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINNSLS  224 (279)
T ss_dssp             --CCHHHHHCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTCCCCEEEEEEEST
T ss_pred             HHHHhhhccccccccceEeccccHhHHHHHHHHHHHHHhcCCCccEEEEcCCcc
Confidence                01111123567999999999999999999999999999999999999753

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=99.85  E-value=2.3e-21  Score=157.92  Aligned_cols=209  Identities=11%  Similarity=0.046  Sum_probs=132.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccc--cccCcccc-cccCCceeeccc
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV--TKDMKMVP-IENYGVKCMSMG  108 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~--~~~~~~~~-~~~~~~~~~~~~  108 (295)
                      |.+.|++...||||||+|+|||.+|++ +|+||++||.|+|++ ....++.......  ........ ............
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~-~G~rVl~id~d~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKA-AGYRTAGYKPVASGS-EKTPEGLRNSDALALQRNSSLQLDYATVNPYTFAEP   79 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHH-TTCCEEEECSEEESC-BCCTTSCBCHHHHHHHHTCSSCCCHHHHCSEEESSC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHH-CCCeEEEECccccCC-CCCCCCcchhHHHHHHHhhccCcccccccccccccc
Confidence            667776554599999999999999999 999999999999874 3433333321100  00000000 000000000000


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc-----hhhhhhccCceEEEeeCCCcchHHHHHH
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ-----LTTTQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~-----~~~~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                      . .................+...+..+. ..||++++|++++.....     .........+.+++|+.+...+...+..
T Consensus        80 ~-~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~V~~~~~~~~~~~~~  157 (224)
T d1byia_          80 T-SPHIISAQEGRPIESLVMSAGLRALE-QQADWVLVEGAGGWFTPLSDTFTFADWVTQEQLPVILVVGVKLGCINHAML  157 (224)
T ss_dssp             S-CHHHHHHHHTCCCCHHHHHHHHHHHH-TTCSEEEEECSSSTTCEEETTEEHHHHHHHHTCCEEEEEECSTTHHHHHHH
T ss_pred             h-hhhhhhhhhhhhhhHHHHHHHHhhhh-hccceEeecccccccccccccchhhcccccccceeeEEEeeccchhHHHHH
Confidence            0 00000000011112345666666666 889999999998765332     1112222356778888888889999999


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccccccccCCCc
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVP  252 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~  252 (295)
                      ..+.+++.+....|+|+|+++.....        ..+..+.+.+.+|++++++||+.++..+....|+.
T Consensus       158 ~~~~~~~~~~~~~gvv~N~~~~~~~~--------~~~~~~~l~~~~gi~vlG~IP~~~~~~e~~~~~~~  218 (224)
T d1byia_         158 TAQVIQHAGLTLAGWVANDVTPPGKR--------HAEYMTTLTRMIPAPLLGEIPWLAENPENAATGKY  218 (224)
T ss_dssp             HHHHHHHTTCCEEEEEEECCSSCCTT--------HHHHHHHHHHHSSSCEEEEECCCTTCTTCCCCGGG
T ss_pred             HHHHHhccCCccEEEEEeCcCCCchH--------HHHHHHHHHHHhCCCEEEECCCCCCCccccccccc
Confidence            99999999999999999998743221        23557888899999999999999998777666653

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

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 sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=99.20  E-value=1.2e-10  Score=92.25  Aligned_cols=166  Identities=18%  Similarity=0.151  Sum_probs=93.7

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      ..++|.++ +..||||||+++.||+.+++ +|++|++|.+|...+....-+..-     .        ...++++...  
T Consensus         9 ~~~vi~lv-Gp~GvGKTTTiaKLA~~~~~-~g~kV~lit~Dt~R~gA~eQL~~~-----a--------~~l~v~~~~~--   71 (207)
T d1ls1a2           9 DRNLWFLV-GLQGSGKTTTAAKLALYYKG-KGRRPLLVAADTQRPAAREQLRLL-----G--------EKVGVPVLEV--   71 (207)
T ss_dssp             SSEEEEEE-CCTTTTHHHHHHHHHHHHHH-TTCCEEEEECCSSCHHHHHHHHHH-----H--------HHHTCCEEEC--
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCcEEEEecccccchHHHHHHHH-----H--------HhcCCccccc--
Confidence            35777664 99999999999999999999 999999999998774432111100     0        0011111110  


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchh------hhhhccCceEEEeeCCCcchHHHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLT------TTQTLQLSGALIVSTPQDVALIDARK  183 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~------~~~l~~ad~viiv~~~~~~s~~~~~~  183 (295)
                         ...      ..............+...+|+|+|||++........      +......+.+++|..+... -.....
T Consensus        72 ---~~~------~~~~~~~~~~~~~~~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~-~~~~~~  141 (207)
T d1ls1a2          72 ---MDG------ESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG-QEALSV  141 (207)
T ss_dssp             ---CTT------CCHHHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT-HHHHHH
T ss_pred             ---ccc------chhhHHHHHHHHHHhhccCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccc-hhHHHH
Confidence               000      011122222211111168999999999754432211      1222345777777766543 333333


Q ss_pred             HHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          184 GITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       184 ~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ...+.+..+  +-++|++++|....          -..+-.+....+.|+.
T Consensus       142 ~~~f~~~~~--~~~~I~TKlDe~~~----------~G~~l~~~~~~~~Pi~  180 (207)
T d1ls1a2         142 ARAFDEKVG--VTGLVLTKLDGDAR----------GGAALSARHVTGKPIY  180 (207)
T ss_dssp             HHHHHHHTC--CCEEEEECGGGCSS----------CHHHHHHHHHHCCCEE
T ss_pred             HHHHHhhCC--CCeeEEeecCcccc----------chHHHHHHHHHCCCEE
Confidence            333333344  45799999984211          1346677777887764

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

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: Thermus aquaticus [TaxId: 271]

Probab=99.13  E-value=4.9e-10  Score=88.49  Aligned_cols=167  Identities=13%  Similarity=0.090  Sum_probs=96.5

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      ..+++|+++ +--||||||+++-||..+.+ +|++|.+|-+|........-+.     .+        ....++.+... 
T Consensus         4 ~~~~vi~lv-GptGvGKTTTiaKLA~~~~~-~g~kV~lit~Dt~R~gA~eQL~-----~~--------a~~l~i~~~~~-   67 (207)
T d1okkd2           4 PKGRVVLVV-GVNGVGKTTTIAKLGRYYQN-LGKKVMFCAGDTFRAAGGTQLS-----EW--------GKRLSIPVIQG-   67 (207)
T ss_dssp             CSSSEEEEE-CSTTSSHHHHHHHHHHHHHT-TTCCEEEECCCCSSTTHHHHHH-----HH--------HHHHTCCEECC-
T ss_pred             CCCEEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCcEEEEEeccccccchhhHh-----hc--------ccccCceEEec-
Confidence            346888887 78899999999999999998 9999999999987654211110     00        01112222110 


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhh---h---------ccCceEEEeeCCCcc
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQ---T---------LQLSGALIVSTPQDV  176 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~---l---------~~ad~viiv~~~~~~  176 (295)
                           ..     .......+.......+..+||+|+|||++......-....   +         ..-+.+++|..+...
T Consensus        68 -----~~-----~~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~  137 (207)
T d1okkd2          68 -----PE-----GTDPAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTG  137 (207)
T ss_dssp             -----CT-----TCCHHHHHHHHHHHHHHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBC
T ss_pred             -----cC-----CccHHHHHHHHHHHHHHCCCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccC
Confidence                 00     1112333433333222268999999999754322111111   1         122556666655543


Q ss_pred             hHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          177 ALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       177 s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                       ...+.....+.+..++.  ++|++++|.....          ..+-.+....+.|+.
T Consensus       138 -~~~~~~~~~~~~~~~~~--~lI~TKlDet~~~----------G~~l~~~~~~~~Pi~  182 (207)
T d1okkd2         138 -QNGLEQAKKFHEAVGLT--GVIVTKLDGTAKG----------GVLIPIVRTLKVPIK  182 (207)
T ss_dssp             -THHHHHHHHHHHHHCCS--EEEEECTTSSCCC----------TTHHHHHHHHCCCEE
T ss_pred             -chHHHHHHHhhhccCCc--eEEEeccCCCCCc----------cHHHHHHHHHCCCEE
Confidence             45555555555555444  7899999943222          346677777777765

>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=99.11  E-value=8.2e-10  Score=87.24  Aligned_cols=173  Identities=16%  Similarity=0.138  Sum_probs=100.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +.||+++ +--||||||+.+-||+.+.+ .|++|++|-+|........-+     ..+        ....++++...   
T Consensus         9 p~vi~lv-GptGvGKTTTiAKLA~~~~~-~g~kV~lit~Dt~R~gA~eQL-----~~~--------a~~l~v~~~~~---   70 (211)
T d2qy9a2           9 PFVILMV-GVNGVGKTTTIGKLARQFEQ-QGKSVMLAAGDTFRAAAVEQL-----QVW--------GQRNNIPVIAQ---   70 (211)
T ss_dssp             TEEEEEE-CCTTSCHHHHHHHHHHHHHT-TTCCEEEECCCTTCHHHHHHH-----HHH--------HHHTTCCEECC---
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCcEEEEecccccccchhhh-----hhh--------hhhcCCccccc---
Confidence            4777776 77899999999999999998 999999999998764311100     000        01112222110   


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhc------------cCceEEEeeCCCcchH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTL------------QLSGALIVSTPQDVAL  178 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~------------~ad~viiv~~~~~~s~  178 (295)
                         .     ........+.+..+..+.+.||+|||||++........+..+.            .-+.+++|..+.. ..
T Consensus        71 ---~-----~~~d~~~~l~~~~~~a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~-~~  141 (211)
T d2qy9a2          71 ---H-----TGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDAST-GQ  141 (211)
T ss_dssp             ---S-----TTCCHHHHHHHHHHHHHHTTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGG-TH
T ss_pred             ---c-----cCCCHHHHHHHHHHHHHHcCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhccc-Cc
Confidence               0     0112344555555543337899999999964432111111110            1245666655544 34


Q ss_pred             HHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEEEeecCCccc
Q 022525          179 IDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVIGEIPIEMDI  243 (295)
Q Consensus       179 ~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~  243 (295)
                      ..+.......+..+  +-++|+++.|.....          ..+-.+....+.|+. ++-....+
T Consensus       142 ~~~~~~~~~~~~~~--~~~lIlTKlDe~~~~----------G~~l~~~~~~~~Pi~-~i~~Gq~v  193 (211)
T d2qy9a2         142 NAVSQAKLFHEAVG--LTGITLTKLDGTAKG----------GVIFSVADQFGIPIR-YIGVGERI  193 (211)
T ss_dssp             HHHHHHHHHHHHSC--CCEEEEECCTTCTTT----------THHHHHHHHHCCCEE-EEECSSSG
T ss_pred             chHHHHhhhhhccC--CceEEEeecCCCCCc----------cHHHHHHHHHCCCEE-EEeCCCCc
Confidence            55555666655554  457999999843221          346677777787765 44444444

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

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: Thermotoga maritima [TaxId: 2336]

Probab=99.03  E-value=1.6e-09  Score=85.81  Aligned_cols=164  Identities=20%  Similarity=0.170  Sum_probs=94.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      +.+|+++ +--||||||+.+-||+.+.+ +|++|.+|-+|........-+.     .+        ....++.+...   
T Consensus        11 p~vi~lv-GptGvGKTTTiAKLAa~~~~-~~~kV~lit~Dt~R~gA~eQL~-----~~--------a~~l~i~~~~~---   72 (213)
T d1vmaa2          11 PFVIMVV-GVNGTGKTTSCGKLAKMFVD-EGKSVVLAAADTFRAAAIEQLK-----IW--------GERVGATVISH---   72 (213)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHH-TTCCEEEEEECTTCHHHHHHHH-----HH--------HHHHTCEEECC---
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCceEEEeecccccchhHHHH-----HH--------hhhcCcccccc---
Confidence            5777775 77899999999999999998 9999999999986533211110     00        01112222110   


Q ss_pred             cCCCCCCccCCchHHHHHHHHHH-hccCCCccEEEEcCCCCCCccchhhhhh------c------cCceEEEeeCCCcch
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSR-EVDWGNLDILVIDMPPGTGDAQLTTTQT------L------QLSGALIVSTPQDVA  177 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~-~l~~~~yD~iiiD~~~~~~~~~~~~~~l------~------~ad~viiv~~~~~~s  177 (295)
                        ..      +......+..... ... ++||+|||||++........+..+      .      .-+.+++|..+.. .
T Consensus        73 --~~------~~d~~~~~~~~~~~~~~-~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~-~  142 (213)
T d1vmaa2          73 --SE------GADPAAVAFDAVAHALA-RNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT-G  142 (213)
T ss_dssp             --ST------TCCHHHHHHHHHHHHHH-TTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG-H
T ss_pred             --CC------CCcHHHHHHHHHHHHHH-cCCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeecccc-C
Confidence              01      1111222222221 122 789999999997443222111111      0      1245666666544 4


Q ss_pred             HHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          178 LIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ...+..........+  +-++|+++.|.....          ..+-.+....+.|+.
T Consensus       143 ~~~~~~~~~~~~~~~--~~~lI~TKlDe~~~~----------G~~l~~~~~~~~Pi~  187 (213)
T d1vmaa2         143 QNGLVQAKIFKEAVN--VTGIILTKLDGTAKG----------GITLAIARELGIPIK  187 (213)
T ss_dssp             HHHHHHHHHHHHHSC--CCEEEEECGGGCSCT----------THHHHHHHHHCCCEE
T ss_pred             cchhhhhhhhccccC--CceEEEecccCCCcc----------cHHHHHHHHHCCCEE
Confidence            566666666666554  457999999943221          346667777777765

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

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 sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.99  E-value=3e-09  Score=84.07  Aligned_cols=166  Identities=19%  Similarity=0.215  Sum_probs=89.0

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeecccc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGF  109 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (295)
                      .+.||+++ +--|+||||+++-||+.+.+ +|++|.+|-+|........-+.     .+.        ...++.+..   
T Consensus        11 ~p~vi~lv-GptGvGKTTTiAKLA~~~~~-~g~kV~lit~Dt~R~ga~eQL~-----~~a--------~~l~v~~~~---   72 (211)
T d1j8yf2          11 IPYVIMLV-GVQGTGKATTAGKLAYFYKK-KGFKVGLVGADVYRPAALEQLQ-----QLG--------QQIGVPVYG---   72 (211)
T ss_dssp             SSEEEEEE-CSCCC----HHHHHHHHHHH-TTCCEEEEECCCSSHHHHHHHH-----HHH--------HHHTCCEEC---
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCceEEEEeeccccchhHHHH-----Hhc--------cccCcceee---
Confidence            35777776 78899999999999999998 9999999999987633111110     000        001111110   


Q ss_pred             ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccc--h------hhhhhccCceEEEeeCCCcchHHHH
Q 022525          110 LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQ--L------TTTQTLQLSGALIVSTPQDVALIDA  181 (295)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~--~------~~~~l~~ad~viiv~~~~~~s~~~~  181 (295)
                        ...      .......+.+.+...+..++|+|+|||++......  .      ........+.+++|..+... ....
T Consensus        73 --~~~------~~~~~~~~~~a~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~-~~~~  143 (211)
T d1j8yf2          73 --EPG------EKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG-QKAY  143 (211)
T ss_dssp             --CTT------CCCHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG-GGHH
T ss_pred             --ccc------chhhhHHHHHHHHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccC-cchH
Confidence              000      11123334443333222789999999996432111  1      11112234566666655442 2334


Q ss_pred             HHHHHHHhcCCCCeeeEEeccccCCCCCCCCCccccCCchhhHHHHHhCCcEE
Q 022525          182 RKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       182 ~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                      ..........+  +-++|++++|....        +  ..+-.+....+.|+.
T Consensus       144 ~~~~~~~~~~~--~~~lI~TKlDet~~--------~--G~~l~~~~~~~lPi~  184 (211)
T d1j8yf2         144 DLASKFNQASK--IGTIIITKMDGTAK--------G--GGALSAVAATGATIK  184 (211)
T ss_dssp             HHHHHHHHHCT--TEEEEEECTTSCSC--------H--HHHHHHHHTTTCCEE
T ss_pred             HHHhhhhcccC--cceEEEecccCCCc--------c--cHHHHHHHHHCcCEE
Confidence            44444544444  34799999983211        1  346666777777765

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.75  E-value=2.5e-07  Score=75.84  Aligned_cols=92  Identities=15%  Similarity=0.086  Sum_probs=77.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      +++.+-|+|||+..+...-....+..+|..|+|+.+...--..+.+.++++++.++|.+ +++|+.+..       ...+
T Consensus        69 ~~~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~~~lP~i-~fINKmDr~-------~ad~  140 (276)
T d2bv3a2          69 KDHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKMDKT-------GADL  140 (276)
T ss_dssp             TTEEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHTTTCCEE-EEEECTTST-------TCCH
T ss_pred             CCeEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHHHcCCCEE-EEEeccccc-------cccc
Confidence            67889999999887766667788889999999999999988999999999999999987 999999842       1111


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                       ...++++.+.++..++. .+|
T Consensus       141 -~~~l~ei~~~l~~~~vp~~~P  161 (276)
T d2bv3a2         141 -WLVIRTMQERLGARPVVMQLP  161 (276)
T ss_dssp             -HHHHHHHHHTTCCCEEECEEE
T ss_pred             -chhHHHHHHHhCCCeEEEEec
Confidence             35689999999998876 777

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {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: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.54  E-value=2.5e-07  Score=78.01  Aligned_cols=149  Identities=18%  Similarity=0.181  Sum_probs=81.0

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCccccc-ccCCceeec
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPI-ENYGVKCMS  106 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~  106 (295)
                      ....+|+|+ +.+|+||||+.-.|+..+.. .|++|.++-.||..+-.. .++|-        ...+... ...+..+.+
T Consensus        52 ~~~~~Igit-G~pGaGKSTLi~~l~~~~~~-~g~~vavlavDpss~~~ggailgd--------r~rm~~~~~~~~~~ir~  121 (327)
T d2p67a1          52 GNTLRLGVT-GTPGAGKSTFLEAFGMLLIR-EGLKVAVIAVDPSSPVTGGSILGD--------KTRMNDLARAEAAFIRP  121 (327)
T ss_dssp             SCSEEEEEE-ECTTSCHHHHHHHHHHHHHH-TTCCEEEEEECCC-----------------------CTTTTCTTEEEEE
T ss_pred             CCceEEEee-CCCCCCHHHHHHHHHHHHHh-cCCceeeecCCCceeeeccccccc--------hhHHHHhcccccccccc
Confidence            347899997 78899999999999999999 999999999998875432 12221        1111110 111111111


Q ss_pred             cccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-HHHHHHHH
Q 022525          107 MGFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-LIDARKGI  185 (295)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-~~~~~~~~  185 (295)
                      ..    ....   .+ -........+..+...+||+|||+|-+ .+.  ........+|.+++|..|+... ++.....+
T Consensus       122 ~~----~~g~---lg-g~~~~~~~~~~~~~~~g~d~iliEtvG-~gq--~e~~i~~~aD~~l~v~~P~~Gd~iq~~k~gi  190 (327)
T d2p67a1         122 VP----SSGH---LG-GASQRARELMLLCEAAGYDVVIVETVG-VGQ--SETEVARMVDCFISLQIAGGGDDLQGIKKGL  190 (327)
T ss_dssp             EC----C---------CHHHHHHHHHHHHHHTTCSEEEEEEEC-CTT--HHHHHHTTCSEEEEEECC------CCCCHHH
T ss_pred             cc----cccc---cc-cchhhhhHHHHHHHhcCCCeEEEeecc-ccc--cchhhhhccceEEEEecCCCchhhhhhchhh
Confidence            11    0000   00 123334444444443789999999984 442  2334455799999999887653 22222222


Q ss_pred             HHHhcCCCCeeeEEecccc
Q 022525          186 TMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       186 ~~l~~~~~~~~~~ViN~~~  204 (295)
                      -.+.    .  .+|+|+.+
T Consensus       191 ~e~a----D--i~VvNKaD  203 (327)
T d2p67a1         191 MEVA----D--LIVINKDD  203 (327)
T ss_dssp             HHHC----S--EEEECCCC
T ss_pred             hccc----c--EEEEEeec
Confidence            2221    1  38999987

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

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: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.45  E-value=1.1e-06  Score=73.90  Aligned_cols=149  Identities=19%  Similarity=0.169  Sum_probs=85.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcc-cccccCCCccccccCccccc-ccCCceeecc
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVP-MMMKIDQKPEVTKDMKMVPI-ENYGVKCMSM  107 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~-~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~  107 (295)
                      ...+|+|+ +.+|+||||+.-.|+..+.. .|++|.+|-.||..+-.. .++|        |...+... ...++.+-+ 
T Consensus        50 ~~~~igit-G~pGaGKSTli~~l~~~~~~-~g~~vaViavDpss~~~gg~llg--------dr~rm~~~~~~~~~~ir~-  118 (323)
T d2qm8a1          50 RAIRVGIT-GVPGVGKSTTIDALGSLLTA-AGHKVAVLAVDPSSTRTGGSILG--------DKTRMARLAIDRNAFIRP-  118 (323)
T ss_dssp             CSEEEEEE-CCTTSCHHHHHHHHHHHHHH-TTCCEEEEEECGGGGSSCCCSSC--------CGGGSTTGGGCTTEEEEC-
T ss_pred             CceEEeee-CCCCCCHHHHHHHHHHHHhh-cCCceeeeecccccHHHHhcccc--------chhhHHHHhcccceeecc-
Confidence            46899996 88999999999999999999 999999999998764321 1221        11111111 111111111 


Q ss_pred             ccccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-HHHHHHHHH
Q 022525          108 GFLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-LIDARKGIT  186 (295)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-~~~~~~~~~  186 (295)
                           ....-  .-..........+..+...+||+|||.|. |.+....  .....+|..+++..|.... ++..+..+-
T Consensus       119 -----~~~~~--~~gg~~~~~~~~i~~~~~~g~d~iiiETV-G~gq~e~--~~~~~~D~~v~v~~p~~GD~iQ~~k~gil  188 (323)
T d2qm8a1         119 -----SPSSG--TLGGVAAKTRETMLLCEAAGFDVILVETV-GVGQSET--AVADLTDFFLVLMLPGAGDELQGIKKGIF  188 (323)
T ss_dssp             -----CCCCS--SHHHHHHHHHHHHHHHHHTTCCEEEEEEC-SSSSCHH--HHHTTSSEEEEEECSCC------CCTTHH
T ss_pred             -----ccccc--cccchhHHHHHHHHhhccCCCCeEEEeeh-hhhhhhh--hhhcccceEEEEeeccchhhhhhhhhhHh
Confidence                 11110  00112344455454444478999999998 4443233  3344799999999888753 111111111


Q ss_pred             HHhcCCCCeeeEEeccccC
Q 022525          187 MFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       187 ~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+    .  -.+|+||.+.
T Consensus       189 E~----a--Di~vvNKaD~  201 (323)
T d2qm8a1         189 EL----A--DMIAVNKADD  201 (323)
T ss_dssp             HH----C--SEEEEECCST
T ss_pred             hh----h--heeeEecccc
Confidence            11    1  1389999983

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=98.35  E-value=2e-06  Score=70.09  Aligned_cols=90  Identities=10%  Similarity=0.074  Sum_probs=72.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCCCCCCCCcccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFICPHCSEPSFIF  217 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~~~~~~~~~~~  217 (295)
                      +++.+-+||||+..+...-...++..+|.+|+|+.+...-...+.+.++.+++.+.+.+ +++|+.+..        .. 
T Consensus        65 ~~~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~~~p~~-i~iNk~D~~--------~~-  134 (267)
T d2dy1a2          65 RGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRM-VVVTKLDKG--------GD-  134 (267)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECGGGC--------CC-
T ss_pred             cccceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhcccccc-ccccccccc--------cc-
Confidence            67789999999887766667788889999999999998888899999999999999986 789999832        11 


Q ss_pred             CCchhhHHHHHhCCcEEE-eec
Q 022525          218 GKGGTHRTAAEMGLKVIG-EIP  238 (295)
Q Consensus       218 ~~~~~~~~~~~~g~~~~~-~Ip  238 (295)
                      ....+.++.+.++ ++++ .+|
T Consensus       135 ~~~~l~~~~~~lg-~~vp~~~P  155 (267)
T d2dy1a2         135 YYALLEDLRSTLG-PILPIDLP  155 (267)
T ss_dssp             HHHHHHHHHHHHC-SEEECEEE
T ss_pred             chhhhhhHHHHhc-cCcCeEee
Confidence            1245788889998 5543 555

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

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: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=98.20  E-value=4.2e-06  Score=63.11  Aligned_cols=41  Identities=22%  Similarity=0.177  Sum_probs=36.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      ||+|+|++ ..|+||||+..+|...|.. +|++|.+|..|...
T Consensus         1 Mkii~I~G-~~gSGKTTli~~l~~~L~~-~g~~v~vik~d~~~   41 (165)
T d1xjca_           1 MNVWQVVG-YKHSGKTTLMEKWVAAAVR-EGWRVGTVKHHGHG   41 (165)
T ss_dssp             CCEEEEEC-CTTSSHHHHHHHHHHHHHH-TTCCEEEEECCC--
T ss_pred             CcEEEEEe-CCCCCHHHHHHHHHHHHHh-CCCeEEEEEeccCc
Confidence            68999985 5599999999999999999 99999999988764

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.18  E-value=3.6e-06  Score=65.91  Aligned_cols=68  Identities=21%  Similarity=0.249  Sum_probs=58.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +++.+.|||||+..+...-.+..+..||.+|+|+.....-...+.+.+..+...+++.+.+++|++|.
T Consensus        65 ~~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D~  132 (204)
T d2c78a3          65 AKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDM  132 (204)
T ss_dssp             SSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             CCeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEeccc
Confidence            67889999999876655556678889999999999988888889999999999999876678999994

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {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: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.92  E-value=8.6e-06  Score=61.16  Aligned_cols=41  Identities=27%  Similarity=0.327  Sum_probs=36.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .++|+|+ +..|+||||++.+|+..|.+ +|.+|.+++.|...
T Consensus         2 ~Pvi~it-G~~GSGKTTL~~~L~~~l~~-~g~~v~v~~~d~~~   42 (170)
T d1np6a_           2 IPLLAFA-AWSGTGKTTLLKKLIPALCA-RGIRPGLIKHTHHD   42 (170)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHHHH-TTCCEEEEEECCC-
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHHHH-CCCeEEEecccccc
Confidence            4688887 56699999999999999999 99999999999865

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=97.86  E-value=2.2e-05  Score=62.33  Aligned_cols=69  Identities=12%  Similarity=0.111  Sum_probs=54.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFIC  207 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~~  207 (295)
                      ..+.+.++|||+...........+..+|.+|+|+.+...-.......+..+...+.|++ +++|+.+...
T Consensus        68 ~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~i-ivlNK~D~~~  136 (227)
T d1g7sa4          68 TLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFV-VAANKIDRIH  136 (227)
T ss_dssp             TCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEE-EEEECGGGST
T ss_pred             cccccccccccceecccccchhcccccceEEEEEecccCcccchhHHHHHhhcCCCeEE-EEEECccCCC
Confidence            56779999999755433344456778999999999888777788899999998998876 9999999643

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=97.68  E-value=6.5e-05  Score=58.10  Aligned_cols=68  Identities=16%  Similarity=0.152  Sum_probs=55.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|||+..+........+..+|.+++|+.....-...+.+.+..+...+.+.+.+++|+.+.
T Consensus        64 ~~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~  131 (196)
T d1d2ea3          64 AARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADA  131 (196)
T ss_dssp             SSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             ceeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHhcCCcEEEEEecccc
Confidence            67889999999755433344566778999999999998777788888888888888777688999994

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

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: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.60  E-value=3.9e-05  Score=61.06  Aligned_cols=39  Identities=28%  Similarity=0.296  Sum_probs=31.8

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP   74 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~   74 (295)
                      |.+..+--|+||||+.-+|...+ . .++++.+|..|+...
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~-~-~~~~~~ivn~d~~~~   40 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL-E-DNYKVAYVNLDTGVK   40 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-T-TTSCEEEEECCSSCS
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH-h-hCCeEEEEecCcccc
Confidence            45556889999999999998765 4 578999999998753

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.26  E-value=0.00018  Score=55.82  Aligned_cols=66  Identities=18%  Similarity=0.165  Sum_probs=49.7

Q ss_pred             ccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          140 LDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       140 yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+||||+..+........+..||.+|+++..... ....+.+.+..+...+.+.+.+++|+.+.
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl  152 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDV  152 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCC
Confidence            4588999997655433455667789999999988775 35566778888888888776688999984

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.24  E-value=0.00018  Score=55.72  Aligned_cols=40  Identities=18%  Similarity=0.174  Sum_probs=35.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++|.++.+..|+||||+|..||..+.. .|.++-+++.|..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~-~~~~~~~~~~D~~   41 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF-IGVPTREFNVGQY   41 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh-cCCCCeEEcccce
Confidence            456666799999999999999999999 9999999999853

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=0.00013  Score=54.95  Aligned_cols=40  Identities=23%  Similarity=0.232  Sum_probs=34.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |.|.++ +..|+||||++..++..|.. .|.+|.++.+++..
T Consensus         2 k~v~It-G~~GtGKTtl~~~i~~~l~~-~~~~v~~~~~~~~~   41 (189)
T d2i3ba1           2 RHVFLT-GPPGVGKTTLIHKASEVLKS-SGVPVDGFYTEEVR   41 (189)
T ss_dssp             CCEEEE-SCCSSCHHHHHHHHHHHHHH-TTCCCEEEECCEEE
T ss_pred             cEEEEE-CCCCCcHHHHHHHHHHHHHH-CCCEEEEEEecccc
Confidence            445564 99999999999999999999 99999999888754

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.17  E-value=0.00054  Score=55.32  Aligned_cols=38  Identities=21%  Similarity=0.232  Sum_probs=33.1

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      |+-+.+..|+||||++..++....+ .|.+|+.||....
T Consensus        59 itei~G~~~sGKT~l~l~~~~~aqk-~g~~v~yiDtE~~   96 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQAQK-AGGTCAFIDAEHA   96 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCC
T ss_pred             EEEEecCCccchHHHHHHHHHHHHh-CCCEEEEEECCcc
Confidence            5555688999999999999999888 9999999998853

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.16  E-value=0.0025  Score=47.38  Aligned_cols=90  Identities=7%  Similarity=-0.049  Sum_probs=53.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.+.|+++.-.........+..+|.++++... +..++....+.+..+.+.  ...++.+|.|+.+....      
T Consensus        52 ~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~------  125 (171)
T d2ew1a1          52 EKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER------  125 (171)
T ss_dssp             EEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG------
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccc------
Confidence            457789999986433222223334578888888764 456777777777766542  23345588899984211      


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                      ........+++.+..+.++
T Consensus       126 ~~v~~~~~~~~~~~~~~~~  144 (171)
T d2ew1a1         126 REVSQQRAEEFSEAQDMYY  144 (171)
T ss_dssp             CSSCHHHHHHHHHHHTCCE
T ss_pred             cchhhhHHHHHHHhCCCEE
Confidence            1112234566677666554

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=97.15  E-value=0.0012  Score=49.26  Aligned_cols=66  Identities=14%  Similarity=0.044  Sum_probs=42.1

Q ss_pred             CCccEEEEcCCCCCCcc---------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEecccc
Q 022525          138 GNLDILVIDMPPGTGDA---------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~---------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~  204 (295)
                      ..+.+++.|+++.....         ......+..+|.++++..............++.++..+.+++ +|+|+.|
T Consensus        46 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~~~pvi-iv~NK~D  120 (171)
T d1mkya1          46 YGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTI-LVANKAE  120 (171)
T ss_dssp             TTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEE-EEEESCC
T ss_pred             cccccccccccceeeeeccccccccccccccccccCcEEEEeeccccccccccccccccccccccccc-ccchhhh
Confidence            45566777776532211         112333456778777777766655556667777777777765 8899998

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.12  E-value=0.0013  Score=48.92  Aligned_cols=89  Identities=18%  Similarity=0.119  Sum_probs=52.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSKV----QVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+.|.|+++......+....+..+|.+++|.+. +..++..+...+..+...    +.++ .+|.|+.+.....   
T Consensus        46 ~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~pi-ilvgnK~Dl~~~~---  121 (168)
T d2gjsa1          46 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPI-ILVGNKSDLVRSR---  121 (168)
T ss_dssp             EEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCE-EEEEECTTCGGGC---
T ss_pred             cccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhcccccccceE-EEeecccchhhhc---
Confidence            568889999997544333444556678998888764 455778777777766542    2344 4888999853211   


Q ss_pred             CccccCCchhhHHHHHhCCcE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~  233 (295)
                         .......+++.+.++.++
T Consensus       122 ---~v~~~~~~~~~~~~~~~~  139 (168)
T d2gjsa1         122 ---EVSVDEGRACAVVFDCKF  139 (168)
T ss_dssp             ---CSCHHHHHHHHHHHTSEE
T ss_pred             ---chhHHHHHHHHHhcCCEE
Confidence               112244666777777644

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=97.09  E-value=0.00054  Score=53.80  Aligned_cols=69  Identities=12%  Similarity=0.044  Sum_probs=58.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.|||||+..+...-....+..+|.+++|+.+...-...+.+.+..+...+++.+.+++|+.+..
T Consensus        87 ~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~~  155 (222)
T d1zunb3          87 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLN  155 (222)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTT
T ss_pred             cceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHHHHcCCCEEEEEEEccccc
Confidence            567899999998776555566677789999999999888888889999999999999888999999853

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.09  E-value=0.00037  Score=52.76  Aligned_cols=37  Identities=24%  Similarity=0.306  Sum_probs=31.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      ||+|.|. +-.|+||||++..|+..|.. .|.++..+..
T Consensus         1 mkiivi~-G~~GsGKTT~~~~La~~L~~-~~~~~~~~~~   37 (194)
T d1nksa_           1 MKIGIVT-GIPGVGKSTVLAKVKEILDN-QGINNKIINY   37 (194)
T ss_dssp             CEEEEEE-ECTTSCHHHHHHHHHHHHHT-TTCCEEEEEH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCCEEEEEC
Confidence            5778776 45599999999999999999 9999988864

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.90  E-value=0.011  Score=43.77  Aligned_cols=68  Identities=12%  Similarity=0.019  Sum_probs=37.3

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC--CCCeeeEEeccccCC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV--QVPILGLVENMSCFI  206 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~  206 (295)
                      .+.+-|.|+|+.-.........+..+|.+|++.+.+ ..++..+....+.+...  ....+.+|.|+.+..
T Consensus        54 ~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~  124 (173)
T d2fu5c1          54 RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN  124 (173)
T ss_dssp             EEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC
T ss_pred             EEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccch
Confidence            467788999864332233333456789888887754 45667776666666532  223455889998843

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=96.87  E-value=0.00045  Score=53.02  Aligned_cols=67  Identities=12%  Similarity=0.117  Sum_probs=49.5

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcch-HHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVA-LIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      .+-+.++|||+...........+..+|.+++++...... ...+.+.+..+...+.+.+.+++|+.+.
T Consensus        77 ~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~  144 (195)
T d1kk1a3          77 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIEL  144 (195)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGG
T ss_pred             ceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccc
Confidence            455899999976554344555566799999988877764 4556777777777788877788999874

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.83  E-value=0.0064  Score=44.66  Aligned_cols=89  Identities=10%  Similarity=0.075  Sum_probs=55.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc--CCCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK--VQVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~--~~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.+.|+++...........+..+|.++++... +..++..+...++.+.+  .+.++ .+|.|+.|....      
T Consensus        49 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i-ilVgnK~Dl~~~------  121 (164)
T d1z2aa1          49 EDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPT-ALVQNKIDLLDD------  121 (164)
T ss_dssp             EEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCE-EEEEECGGGGGG------
T ss_pred             ceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhhcccccccccccCCCceE-EEeeccCCcccc------
Confidence            457789999986544333344446678988888776 44567776666666544  34555 488899995321      


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                      ........+++++.++.++
T Consensus       122 ~~v~~~~~~~~~~~~~~~~  140 (164)
T d1z2aa1         122 SCIKNEEAEGLAKRLKLRF  140 (164)
T ss_dssp             CSSCHHHHHHHHHHHTCEE
T ss_pred             eeeeehhhHHHHHHcCCEE
Confidence            1122244667777777654

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.016  Score=42.81  Aligned_cols=117  Identities=15%  Similarity=0.136  Sum_probs=66.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeC-CCcchHHHHHHHHHHHhcCC--CCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVST-PQDVALIDARKGITMFSKVQ--VPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~--~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.+.|+++..............+|.++++.. .+..++..+...+..+.+..  ..++.+|.|+.+.....     
T Consensus        50 ~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~-----  124 (173)
T d2a5ja1          50 KQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR-----  124 (173)
T ss_dssp             EEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-----
T ss_pred             eEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhh-----
Confidence            34667888988654433334444567888888877 45567777777766665431  22455888999843211     


Q ss_pred             cccCCchhhHHHHHhCCcEEEeecCCccccccccCCCceEEcCCCChHHHHHHHHHHHHHHHHH
Q 022525          215 FIFGKGGTHRTAAEMGLKVIGEIPIEMDIRKGSDDGVPVVISAPDSTVSRAYGEVAVNVVNRLQ  278 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a~~~g~~i~~~~~~s~~~~~~~~l~~~l~~~~~  278 (295)
                       ....+....+.+..+.++.         .-++..|.         ...+.|.+++++|..++.
T Consensus       125 -~~~~~~~~~~a~~~~~~~~---------e~Sa~tg~---------~V~e~f~~i~~~i~~~~~  169 (173)
T d2a5ja1         125 -DVKREEGEAFAREHGLIFM---------ETSAKTAC---------NVEEAFINTAKEIYRKIQ  169 (173)
T ss_dssp             -CSCHHHHHHHHHHHTCEEE---------EECTTTCT---------THHHHHHHHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHHHcCCEEE---------EecCCCCC---------CHHHHHHHHHHHHHHHHH
Confidence             1122446666666665432         12222222         234556777777665544

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.80  E-value=0.0013  Score=52.21  Aligned_cols=68  Identities=18%  Similarity=0.050  Sum_probs=54.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH-------HHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI-------DARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..|.+.|||||+..+...-....+..+|.+|+|+.+....+.       .+...+..++..+++.+.+++|+.+.
T Consensus        82 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~  156 (239)
T d1f60a3          82 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDS  156 (239)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGG
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCCeEEEEEECCCC
Confidence            678999999998777544456677789999999998876443       46777777888999987789999984

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.74  E-value=0.047  Score=40.96  Aligned_cols=68  Identities=13%  Similarity=0.092  Sum_probs=43.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|+|+|+.-.........+..++.+|++.+.+. .++..+......+.+.  ...++.+|.|+.+.
T Consensus        53 ~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~  123 (194)
T d2bcgy1          53 KTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL  123 (194)
T ss_dssp             EEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEecccc
Confidence            45778889998744332333344567888888888764 4566666666655542  22345689998774

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.73  E-value=0.002  Score=51.72  Aligned_cols=40  Identities=20%  Similarity=0.169  Sum_probs=34.6

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .|..+.+..|+||||++..++....+ .|.+|++||.....
T Consensus        55 ~itei~G~~gsGKTtl~l~~~~~~q~-~g~~~vyidtE~~~   94 (263)
T d1u94a1          55 RIVEIYGPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHAL   94 (263)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCCC
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHHc-CCCEEEEEcccccc
Confidence            35555689999999999999999999 99999999998643

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.72  E-value=0.012  Score=43.76  Aligned_cols=67  Identities=13%  Similarity=-0.014  Sum_probs=38.5

Q ss_pred             CCccEEEEcCCCCCCcc-------chhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhc-----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDA-------QLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSK-----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~-------~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|+|+-....       ......+..++.++.+................++..     .+.++ .+|+|+.+.
T Consensus        47 ~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~-iiv~NK~D~  125 (180)
T d1udxa2          47 EEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPS-LVALNKVDL  125 (180)
T ss_dssp             SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCE-EEEEECCTT
T ss_pred             CCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhccccccchhhh-hhhhhhhhh
Confidence            45678899998632210       112334556788877777665544444444444332     13344 489999984

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.69  E-value=0.0013  Score=49.76  Aligned_cols=40  Identities=25%  Similarity=0.251  Sum_probs=33.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      -+|+| ++-.|+||||+|..|+..+.. .+..+..++.|...
T Consensus        23 ~iIgI-~G~~GSGKSTla~~L~~~l~~-~~~~~~~~~~~~~~   62 (198)
T d1rz3a_          23 LVLGI-DGLSRSGKTTLANQLSQTLRE-QGISVCVFHMDDHI   62 (198)
T ss_dssp             EEEEE-EECTTSSHHHHHHHHHHHHHH-TTCCEEEEEGGGGC
T ss_pred             EEEEE-ECCCCCCHHHHHHHHHHHhcc-ccccceeccccccc
Confidence            45666 688899999999999999999 99999988876543

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.65  E-value=0.001  Score=55.60  Aligned_cols=67  Identities=16%  Similarity=0.085  Sum_probs=58.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +.|-+-|||||+..+...-...++..+|.+++|+.+...-...+.+.++.+.+.+++++ +++|++|.
T Consensus        94 ~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~~~p~i-~viNKiDr  160 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPV-VVINKVDR  160 (341)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEE-EEEECHHH
T ss_pred             cceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHcCCCeE-EEEECccc
Confidence            55667899999988766667788889999999999999989999999999999999886 88999983

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.64  E-value=0.0035  Score=46.88  Aligned_cols=67  Identities=16%  Similarity=0.123  Sum_probs=40.2

Q ss_pred             CCccEEEEcCCCCCCccc--------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcC--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ--------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKV--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~--------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~  205 (295)
                      ....++++|||+......        .....+..||.+++|..........-....+.+++.  +.++ .+|+|+.|.
T Consensus        51 ~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~pi-ilv~NK~Dl  127 (178)
T d1wf3a1          51 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPI-LLVGNKLDA  127 (178)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCE-EEEEECGGG
T ss_pred             eeeeeeecccccccccccccchhcccccccccccccceeeeechhhhhcccccchhhheeccccchhh-hhhhccccc
Confidence            456688999986432111        112334578999998877664333334455566543  3344 589999984

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.63  E-value=0.0023  Score=51.47  Aligned_cols=40  Identities=18%  Similarity=0.151  Sum_probs=33.6

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .|..+.+..|+||||++..++....+ .|.+|+.||....-
T Consensus        61 ~i~e~~G~~~~GKT~l~l~~~~~~q~-~g~~~vyIDtE~~~  100 (269)
T d1mo6a1          61 RVIEIYGPESSGKTTVALHAVANAQA-AGGVAAFIDAEHAL  100 (269)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHHHHH-TTCEEEEEESSCCC
T ss_pred             eeEEEecCCCcHHHHHHHHHHHHHhc-CCCEEEEEECCccC
Confidence            44444588999999999999999888 99999999988643

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.63  E-value=0.0043  Score=45.91  Aligned_cols=90  Identities=11%  Similarity=0.074  Sum_probs=51.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.+.|+|+.-.........+..+|.+|++...... ++.............  ....+.+|.|+.+.....     
T Consensus        52 ~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~-----  126 (169)
T d3raba_          52 KRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER-----  126 (169)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGC-----
T ss_pred             ceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeeccccccc-----
Confidence            346688999986443222333345678988888766553 555555555544432  233445788999843111     


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                       ....+..+++.+..+.++
T Consensus       127 -~v~~~~~~~~~~~~~~~~  144 (169)
T d3raba_         127 -VVSSERGRQLADHLGFEF  144 (169)
T ss_dssp             -CSCHHHHHHHHHHHTCEE
T ss_pred             -ccchhhhHHHHHHcCCEE
Confidence             112234566677777543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.62  E-value=0.012  Score=43.64  Aligned_cols=89  Identities=13%  Similarity=0.061  Sum_probs=54.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+.+.|+++...........+..+|.++++.+.+. .++..+...+..+.+    .+.++ .+|.|+.+.....   
T Consensus        52 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ilvgnK~Dl~~~~---  127 (173)
T d2fn4a1          52 IPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPV-VLVGNKADLESQR---  127 (173)
T ss_dssp             EEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCE-EEEEECGGGGGGC---
T ss_pred             eeeeeeccccccccccccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCce-EEEEEeechhhcc---
Confidence            45778899998654432333444557898888877664 467766666655533    24444 4899999853211   


Q ss_pred             CccccCCchhhHHHHHhCCcE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~  233 (295)
                         .........+.+.++.++
T Consensus       128 ---~~~~~~~~~~~~~~~~~~  145 (173)
T d2fn4a1         128 ---QVPRSEASAFGASHHVAY  145 (173)
T ss_dssp             ---CSCHHHHHHHHHHTTCEE
T ss_pred             ---ccchhhhhHHHHhcCCEE
Confidence               111234666767766543

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.58  E-value=0.0018  Score=48.08  Aligned_cols=42  Identities=29%  Similarity=0.222  Sum_probs=32.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      .+.+|.++ +-.|+||||+|..||..|.......+..+|.|..
T Consensus         5 ~g~~I~l~-G~~GsGKTTia~~La~~L~~~~~~~~~~~~~~~~   46 (183)
T d1m8pa3           5 QGFTIFLT-GYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTV   46 (183)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHHH
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHhhcCCCchhhhhhHHh
Confidence            46777775 8899999999999999997624456667776643

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.57  E-value=0.0012  Score=51.26  Aligned_cols=43  Identities=30%  Similarity=0.248  Sum_probs=35.4

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+.+|.|+ +-.|+||||+|..|+..|.+..+.++..+|.|.-.
T Consensus        23 kg~vIwlt-GlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR   65 (208)
T d1m7ga_          23 RGLTIWLT-GLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR   65 (208)
T ss_dssp             SCEEEEEE-CSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHT
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHH
Confidence            46788775 88899999999999988864368899999998654

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=96.54  E-value=0.0016  Score=52.56  Aligned_cols=39  Identities=26%  Similarity=0.296  Sum_probs=33.1

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.+..|+||||++.++|..+|...|.+|+++.++..
T Consensus        37 l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~~   75 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEES   75 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeeccc
Confidence            455679999999999999999887537999999998853

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {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: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.51  E-value=0.0015  Score=53.65  Aligned_cols=43  Identities=33%  Similarity=0.385  Sum_probs=35.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHh-CCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASK-CQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~-~g~~VlliD~D~~~   73 (295)
                      .+-+|+| ++..|+||||+|..|+..|++. .+.+|.+|.+|-..
T Consensus        79 ~P~iIGI-aG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          79 IPYIISI-AGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCEEEEE-EECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCEEEEE-eCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            3567777 5889999999999999999861 37899999999654

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.50  E-value=0.0098  Score=43.68  Aligned_cols=90  Identities=14%  Similarity=0.076  Sum_probs=53.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.|.|+++.-............+|.++++... +..++..+...+..+.+.  ...++.++.|+.+.....     
T Consensus        51 ~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~-----  125 (166)
T d1z0fa1          51 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR-----  125 (166)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-----
T ss_pred             EEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhc-----
Confidence            456789999996433223334445678988888775 445666666666666542  233455888998843211     


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                       ....+..+.+.+..+.++
T Consensus       126 -~~~~~~~~~~~~~~~~~~  143 (166)
T d1z0fa1         126 -DVTYEEAKQFAEENGLLF  143 (166)
T ss_dssp             -CSCHHHHHHHHHHTTCEE
T ss_pred             -ccHHHHHHHHHHHcCCEE
Confidence             111234566666666543

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.47  E-value=0.021  Score=41.79  Aligned_cols=90  Identities=17%  Similarity=0.143  Sum_probs=48.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.|.|+|+.-.........+..+|.++++...... +...+..........  ...+..++.|+-+..       .
T Consensus        49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~-------~  121 (166)
T d1g16a_          49 KKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-------T  121 (166)
T ss_dssp             CEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-------T
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhh-------h
Confidence            457788999997432223333445578888888776654 444444444433332  223334666665521       1


Q ss_pred             cccCCchhhHHHHHhCCcEE
Q 022525          215 FIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~~  234 (295)
                      .....+..+++.+..+.++.
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~  141 (166)
T d1g16a_         122 RVVTADQGEALAKELGIPFI  141 (166)
T ss_dssp             CCSCHHHHHHHHHHHTCCEE
T ss_pred             hhhhHHHHHHHHHhcCCeEE
Confidence            11223456667777665543

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.019  Score=42.03  Aligned_cols=90  Identities=14%  Similarity=0.072  Sum_probs=52.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.+.|+++...........+..+|.+++|...+. .++..+...++.+...  ....+.+|.|+.+....      
T Consensus        50 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~------  123 (167)
T d1z08a1          50 KRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE------  123 (167)
T ss_dssp             CEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGG------
T ss_pred             ccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccc------
Confidence            46788899998654433333344567898888887655 4677776666655432  23344578899985321      


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                      ........+++++.++.++
T Consensus       124 ~~v~~~e~~~~a~~~~~~~  142 (167)
T d1z08a1         124 RHVSIQEAESYAESVGAKH  142 (167)
T ss_dssp             CCSCHHHHHHHHHHTTCEE
T ss_pred             cccchHHHHHHHHHcCCeE
Confidence            1122345677777777544

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.39  E-value=0.0014  Score=49.12  Aligned_cols=37  Identities=22%  Similarity=0.280  Sum_probs=31.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      |+|+|. +-.|+||||++..|+..|.. .|.++.++..+
T Consensus         2 kiI~i~-G~~GsGKsT~~~~L~~~l~~-~~~~~~~~~~~   38 (190)
T d1khta_           2 KVVVVT-GVPGVGSTTSSQLAMDNLRK-EGVNYKMVSFG   38 (190)
T ss_dssp             CEEEEE-CCTTSCHHHHHHHHHHHHHT-TTCCCEEEEHH
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHHHHH-cCCCeEEEecC
Confidence            677775 77789999999999999999 89998887543

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {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: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=96.37  E-value=0.0018  Score=52.07  Aligned_cols=38  Identities=32%  Similarity=0.316  Sum_probs=31.2

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhC----------CCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKC----------QLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~----------g~~VlliD~D~~   72 (295)
                      ++++.+.+|+||||++.+||..+|. .          +.+|++++++..
T Consensus        31 ~~~i~G~~G~GKS~l~l~la~~ia~-g~~~~~~~~~~~~~vl~~~~E~~   78 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLAAQIAG-GPDLLEVGELPTGPVIYLPAEDP   78 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHT-CCCTTCCCCCCCCCEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHc-CCCcccccccCCCceEEEeccch
Confidence            5666799999999999999999985 3          347888887754

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.34  E-value=0.07  Score=39.08  Aligned_cols=67  Identities=12%  Similarity=0.015  Sum_probs=42.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|+++...........+..+|.++++.+... .++..+...++.+.+       .+.|+ .+|.|+.|.
T Consensus        53 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~pi-ilVgnK~Dl  127 (174)
T d1wmsa_          53 HFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF-VILGNKIDI  127 (174)
T ss_dssp             EEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCE-EEEEECTTC
T ss_pred             ceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceE-EEeccccch
Confidence            35677899998655543444455567888888876654 366666555544432       23454 499999985

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=96.31  E-value=0.0065  Score=45.50  Aligned_cols=49  Identities=8%  Similarity=-0.003  Sum_probs=37.1

Q ss_pred             hhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          157 TTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       157 ~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ....+..+|.++++...+..........+..++..+.+.+ +|+|+.+..
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~~~~~~~i-~v~nK~D~~  133 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASV-VVFNKWDLV  133 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEE-EEEECGGGS
T ss_pred             HHHHHhcCCEEEEeecccccchhhHHHHHHHHHHcCCcee-eeccchhhh
Confidence            3445567899999998887666777777777877777764 889999853

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.30  E-value=0.087  Score=38.94  Aligned_cols=67  Identities=9%  Similarity=-0.047  Sum_probs=43.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc----C---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK----V---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~----~---~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|+++...........+..+|.++++.... ..++..+...++.+.+    .   +.|+ .+|.|+.|.
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~-ilv~nK~Dl  123 (184)
T d1vg8a_          49 RLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF-VVLGNKIDL  123 (184)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCE-EEEEECTTS
T ss_pred             ceEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCE-EEEEEeecc
Confidence            4567888999865443344445566789888888774 4566666555544432    1   2344 488999984

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.28  E-value=0.0022  Score=50.41  Aligned_cols=40  Identities=20%  Similarity=0.254  Sum_probs=34.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ..+.+..+..|+|||+++.++|..+++ .|.+|++++++..
T Consensus        26 gsl~li~G~pGsGKT~l~~qia~~~~~-~~~~~~~is~e~~   65 (242)
T d1tf7a2          26 DSIILATGATGTGKTLLVSRFVENACA-NKERAILFAYEES   65 (242)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHHT-TTCCEEEEESSSC
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHH-hccccceeeccCC
Confidence            345555699999999999999999999 9999999998753

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.28  E-value=0.0085  Score=44.23  Aligned_cols=89  Identities=10%  Similarity=0.042  Sum_probs=51.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC-C-CCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV-Q-VPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~-~-~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+.+.|+++...........+..+|.++++.... ..++.........+.+. . ..++.+|.|+.+....      
T Consensus        53 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~------  126 (170)
T d1r2qa_          53 TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK------  126 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG------
T ss_pred             eEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccccccc------
Confidence            4567889999865443333344456788888877644 44666666666655432 1 2234588999984321      


Q ss_pred             cccCCchhhHHHHHhCCc
Q 022525          215 FIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~  232 (295)
                      .....+..+++.+..+.+
T Consensus       127 ~~v~~e~~~~~~~~~~~~  144 (170)
T d1r2qa_         127 RAVDFQEAQSYADDNSLL  144 (170)
T ss_dssp             CCSCHHHHHHHHHHTTCE
T ss_pred             ccccHHHHHHHHHhcCCE
Confidence            112224455666666543

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.28  E-value=0.0094  Score=44.31  Aligned_cols=88  Identities=10%  Similarity=0.007  Sum_probs=54.0

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+.|.|+|+..............+|.++++... +..++..+...+..+.+.   ...++.++.|+.+..       
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~-------  126 (177)
T d1x3sa1          54 NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-------  126 (177)
T ss_dssp             EEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-------
T ss_pred             cccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccc-------
Confidence            567899999986433223333445678888888874 446677777777776542   234566888887732       


Q ss_pred             ccccCCchhhHHHHHhCCc
Q 022525          214 SFIFGKGGTHRTAAEMGLK  232 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~  232 (295)
                      ..........++.+..+.+
T Consensus       127 ~~~v~~~~~~~~~~~~~~~  145 (177)
T d1x3sa1         127 NREVDRNEGLKFARKHSML  145 (177)
T ss_dssp             SCCSCHHHHHHHHHHTTCE
T ss_pred             cccccHHHHHHHHHHCCCE
Confidence            1122223456667766654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.27  E-value=0.1  Score=38.12  Aligned_cols=66  Identities=11%  Similarity=-0.029  Sum_probs=35.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc-------CCCCeeeEEeccccC
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK-------VQVPILGLVENMSCF  205 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~-------~~~~~~~~ViN~~~~  205 (295)
                      ...+.+.|+++.-............+|.++++.... ..++..+...++.+.+       .+.|+ .+|.|+.+.
T Consensus        51 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~pi-ilv~nK~Dl  124 (175)
T d1ky3a_          51 VATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPF-VILGNKIDA  124 (175)
T ss_dssp             CEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCE-EEEEECTTS
T ss_pred             cccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcE-EEEecccch
Confidence            345678888854332223333455688888887764 4456665555554432       13455 499999984

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=96.27  E-value=0.0038  Score=49.52  Aligned_cols=69  Identities=13%  Similarity=0.044  Sum_probs=47.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHH-------HHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALI-------DARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      ..+.+.++|||+..+........+..+|.+++|+.....-+.       .+...+..+...+++.+.+++|+.+..
T Consensus       100 ~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~~  175 (245)
T d1r5ba3         100 EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEP  175 (245)
T ss_dssp             SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTST
T ss_pred             ccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCeEEEEEEcCCCC
Confidence            678899999998777555566777789999999998775444       466777777778888778999999953

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {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: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.22  E-value=0.0089  Score=46.50  Aligned_cols=37  Identities=16%  Similarity=0.281  Sum_probs=26.9

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |.+.++=-|+||||+-.+|...  . .|+|+.+|-.|...
T Consensus         5 v~iitGFLGaGKTTll~~lL~~--~-~~~riaVI~Ne~g~   41 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE--Q-HGYKIAVIENEFGE   41 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS--C-CCCCEEEECSSCCS
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc--C-CCCcEEEEEecccc
Confidence            4455677799999997766542  4 68999999777533

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.11  E-value=0.02  Score=42.15  Aligned_cols=89  Identities=11%  Similarity=0.045  Sum_probs=51.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+-+.|+++...........+..+|.+++|.+.+.. ++..+...+..+.+    ...++ .+|.|+.+....    
T Consensus        51 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-ilvgnK~Dl~~~----  125 (171)
T d2erya1          51 RAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPM-ILIGNKADLDHQ----  125 (171)
T ss_dssp             EEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSE-EEEEECTTCTTS----
T ss_pred             cccccccccccccccccccccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCE-EEEEeccchhhh----
Confidence            456788999987555433434445678988888876553 66666655544332    23444 488999884311    


Q ss_pred             CccccCCchhhHHHHHhCCcE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~  233 (295)
                        ........+++++.++.++
T Consensus       126 --~~v~~~~~~~~~~~~~~~~  144 (171)
T d2erya1         126 --RQVTQEEGQQLARQLKVTY  144 (171)
T ss_dssp             --CSSCHHHHHHHHHHTTCEE
T ss_pred             --ccchHHHHHHHHHHcCCEE
Confidence              1222345677777777544

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.11  E-value=0.03  Score=41.24  Aligned_cols=89  Identities=19%  Similarity=0.153  Sum_probs=53.0

Q ss_pred             CCccEEEEcCCCCCCccc-hhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhcC----CCCeeeEEeccccCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQ-LTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSKV----QVPILGLVENMSCFICPHCS  211 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~-~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~~~ViN~~~~~~~~~~  211 (295)
                      ..+.+.++|++...+... .....+..+|.+|+|.+. +..++..+......+...    +.++ .+|.|+.|....   
T Consensus        51 ~~~~~~~~d~~~~~g~e~~~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~pi-ilvgnK~Dl~~~---  126 (172)
T d2g3ya1          51 ESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI-ILVGNKSDLVRC---  126 (172)
T ss_dssp             EEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCE-EEEEECTTCGGG---
T ss_pred             ceeeeeeeccccccccccccccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceE-EEEecccccccc---
Confidence            457788889875433211 222234568888888654 455777777777766543    3455 499999984311   


Q ss_pred             CCccccCCchhhHHHHHhCCcE
Q 022525          212 EPSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~g~~~  233 (295)
                         .....+..+++.+.++.++
T Consensus       127 ---~~v~~~~~~~~a~~~~~~~  145 (172)
T d2g3ya1         127 ---REVSVSEGRACAVVFDCKF  145 (172)
T ss_dssp             ---CCSCHHHHHHHHHHHTCEE
T ss_pred             ---ccccHHHHHHHHHHcCCeE
Confidence               1122244566777777554

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.01  E-value=0.0017  Score=52.59  Aligned_cols=40  Identities=23%  Similarity=0.398  Sum_probs=32.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ..+|+|+ +..|+||||++..|...|.+ .|.++++|..|..
T Consensus         4 ~pIIgIa-G~SGSGKTTva~~l~~i~~~-~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           4 HPIISVT-GSSGAGTSTVKHTFDQIFRR-EGVKAVSIEGDAF   43 (288)
T ss_dssp             SCEEEEE-SCC---CCTHHHHHHHHHHH-HTCCEEEEEGGGG
T ss_pred             CCEEEEE-CCCCCcHHHHHHHHHHHHhh-cCCCeEEEeCCCC
Confidence            4689985 78899999999999999999 8999999999964

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.00  E-value=0.0032  Score=47.47  Aligned_cols=40  Identities=25%  Similarity=0.283  Sum_probs=32.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++.+|.++ +-.|+||||+|..||..|.. .+.++..++.|.
T Consensus        18 ~g~vI~L~-G~pGSGKTTiAk~La~~l~~-~~~~~~~~~~d~   57 (195)
T d1x6va3          18 RGCTVWLT-GLSGAGKTTVSMALEEYLVC-HGIPCYTLDGDN   57 (195)
T ss_dssp             CCEEEEEE-SSCHHHHHHHHHHHHHHHHH-TTCCEEEECHHH
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHHHh-cCCCccchhHHh
Confidence            46777664 77799999999999999999 888877776654

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.98  E-value=0.057  Score=39.30  Aligned_cols=89  Identities=9%  Similarity=-0.033  Sum_probs=52.6

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCcc
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPSF  215 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~~  215 (295)
                      .+.+.|.|+++...........+..+|.++++.... ..++..+...+..+.+.  ....+.+|.|+.|....      .
T Consensus        52 ~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~------~  125 (167)
T d1z0ja1          52 LHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV------R  125 (167)
T ss_dssp             EEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGG------C
T ss_pred             ccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccc------c
Confidence            455678888764443344445566788888887644 44666666655544432  23345699999985311      1


Q ss_pred             ccCCchhhHHHHHhCCcE
Q 022525          216 IFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       216 ~~~~~~~~~~~~~~g~~~  233 (295)
                      .......+++++.++.++
T Consensus       126 ~v~~~~~~~~~~~~~~~~  143 (167)
T d1z0ja1         126 EVMERDAKDYADSIHAIF  143 (167)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             chhHHHHHHHHHHcCCEE
Confidence            222345667777777654

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=95.86  E-value=0.0034  Score=46.41  Aligned_cols=36  Identities=31%  Similarity=0.329  Sum_probs=26.4

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+++|.+ ++..|+||||++..|    ++..|.+.+.+|.|
T Consensus         3 ~g~iI~l-~G~~GsGKSTia~~L----a~~lg~~~~~~~~d   38 (176)
T d1zp6a1           3 GGNILLL-SGHPGSGKSTIAEAL----ANLPGVPKVHFHSD   38 (176)
T ss_dssp             TTEEEEE-EECTTSCHHHHHHHH----HTCSSSCEEEECTT
T ss_pred             CCeEEEE-ECCCCCCHHHHHHHH----HHHhCCCEEEecHH
Confidence            3577666 588999999998755    55357888877665

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.059  Score=39.33  Aligned_cols=89  Identities=12%  Similarity=0.027  Sum_probs=51.9

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHh---cCCCCeeeEEeccccCCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFS---KVQVPILGLVENMSCFICPHCSEP  213 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~---~~~~~~~~~ViN~~~~~~~~~~~~  213 (295)
                      ..+.+-|.|+++.... .........+|.++++.+... .++..+........   .....++.+|.|+.|....     
T Consensus        48 ~~~~l~i~D~~g~~~~-~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~-----  121 (168)
T d2atva1          48 EVVSMEILDTAGQEDT-IQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS-----  121 (168)
T ss_dssp             EEEEEEEEECCCCCCC-HHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGG-----
T ss_pred             cceEEEEeeccccccc-ccchhhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhh-----
Confidence            4578899999854432 222233446888888877554 56666655444332   2223345599999985311     


Q ss_pred             ccccCCchhhHHHHHhCCcE
Q 022525          214 SFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       214 ~~~~~~~~~~~~~~~~g~~~  233 (295)
                       .....+..+++.++++.++
T Consensus       122 -r~V~~~e~~~~a~~~~~~~  140 (168)
T d2atva1         122 -RQVSTEEGEKLATELACAF  140 (168)
T ss_dssp             -CCSCHHHHHHHHHHHTSEE
T ss_pred             -ccCcHHHHHHHHHHhCCeE
Confidence             1222345667777777543

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.86  E-value=0.0037  Score=48.81  Aligned_cols=69  Identities=16%  Similarity=0.103  Sum_probs=52.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchH-------HHHHHHHHHHhcCCCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVAL-------IDARKGITMFSKVQVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~~~ViN~~~~~  206 (295)
                      +.+.+-|||||+..+........+..+|.+|+|+.....-.       ..+.+.+..+...+.+.+.+++|+.+..
T Consensus        79 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~  154 (224)
T d1jnya3          79 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLT  154 (224)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGS
T ss_pred             CCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCC
Confidence            67889999999887765566777888999999999887532       2344555566667777766889999954

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.81  E-value=0.008  Score=46.28  Aligned_cols=36  Identities=31%  Similarity=0.393  Sum_probs=32.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      ++.|+|- +--|+||||.+..|+..|.. +|.+|.+++
T Consensus         3 G~lI~ie-G~dGsGKsT~~~~L~~~L~~-~g~~v~~~~   38 (209)
T d1nn5a_           3 GALIVLE-GVDRAGKSTQSRKLVEALCA-AGHRAELLR   38 (209)
T ss_dssp             CCEEEEE-ESTTSSHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             eeEEEEE-CCCCCCHHHHHHHHHHHHHH-CCCcEEEEe
Confidence            6788886 66679999999999999999 999998886

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=95.78  E-value=0.0028  Score=47.26  Aligned_cols=25  Identities=28%  Similarity=0.396  Sum_probs=19.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +|.|+|. +-.|+||||+|..||..+
T Consensus         7 ~K~I~i~-G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAIL-GGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEE-CCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            5888886 555999999999777643

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.71  E-value=0.0043  Score=47.81  Aligned_cols=39  Identities=28%  Similarity=0.348  Sum_probs=31.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC-----CCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC-----QLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~-----g~~VlliD~D~   71 (295)
                      +-+|+|. +..|+||||+|..|+..|.. .     +.+|.+|..|-
T Consensus         2 P~iIgI~-G~~gSGKSTla~~L~~~l~~-~~~~~~~~~~~vi~~D~   45 (213)
T d1uj2a_           2 PFLIGVS-GGTASGKSSVCAKIVQLLGQ-NEVDYRQKQVVILSQDS   45 (213)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHTTG-GGSCGGGCSEEEEEGGG
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHhch-hccccCCCceEEEeccc
Confidence            4678885 88899999999999998875 3     35788898874

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=95.70  E-value=0.024  Score=42.60  Aligned_cols=41  Identities=7%  Similarity=0.133  Sum_probs=26.8

Q ss_pred             CceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          164 LSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       164 ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +|.+++++.....-.......++.+...+.+++ +|+|+.+.
T Consensus       106 ~~~vi~viD~~~~~~~~~~~~~~~l~~~~~pii-vv~NK~D~  146 (195)
T d1svia_         106 LKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVI-VIATKADK  146 (195)
T ss_dssp             EEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEE-EEEECGGG
T ss_pred             hhhhhhhhhccccccccccccccccccccCcce-echhhccc
Confidence            455555555544333455677777777777764 99999984

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.64  E-value=0.088  Score=38.01  Aligned_cols=90  Identities=14%  Similarity=0.055  Sum_probs=53.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC--CCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV--QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~--~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+-|.|+++.-.........+..+|.++++.+.. ..++..+...+..+.+.  ....+.+|.|+.+.....     
T Consensus        47 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~-----  121 (164)
T d1yzqa1          47 RTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR-----  121 (164)
T ss_dssp             CEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGC-----
T ss_pred             CceeeeecccCCcchhccchHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhh-----
Confidence            4566788999865443333444566788888887664 44666666666655432  223455888999853211     


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                       ....+...++.+.++.++
T Consensus       122 -~~~~~~~~~~~~~~~~~~  139 (164)
T d1yzqa1         122 -QVSIEEGERKAKELNVMF  139 (164)
T ss_dssp             -CSCHHHHHHHHHHTTCEE
T ss_pred             -hhhHHHHHHHHHHcCCEE
Confidence             112234666777776543

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=95.61  E-value=0.0041  Score=45.73  Aligned_cols=24  Identities=46%  Similarity=0.660  Sum_probs=18.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVA   55 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~   55 (295)
                      .|+|.+ .+..|+||||+|..|+..
T Consensus         2 ~klI~i-~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           2 KKLYII-TGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEE-ECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHH
Confidence            355555 599999999999977653

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.60  E-value=0.032  Score=41.11  Aligned_cols=68  Identities=15%  Similarity=0.124  Sum_probs=43.7

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhcC---CCCeeeEEeccccCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSKV---QVPILGLVENMSCFI  206 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~  206 (295)
                      ..+.+-|.|+++..............+|.+|++...+ ..++..+.+.+..+.+.   +.| +.+|.|+.+..
T Consensus        51 ~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~p-iilvgnK~Dl~  122 (175)
T d2f9la1          51 KTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIV-IMLVGNKSDLR  122 (175)
T ss_dssp             EEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCG
T ss_pred             EEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCc-EEEEEeeeccc
Confidence            4467889999864332233334455788888887654 45677777777766543   333 45888999853

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=95.58  E-value=0.003  Score=46.72  Aligned_cols=36  Identities=19%  Similarity=0.148  Sum_probs=26.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .++|.+ ++-.|+||||+|..|+..    .|.+.+.+|.|.
T Consensus         3 ~kiI~l-~G~~GsGKsTva~~L~~~----l~~~~~~~~~d~   38 (178)
T d1qhxa_           3 TRMIIL-NGGSSAGKSGIVRCLQSV----LPEPWLAFGVDS   38 (178)
T ss_dssp             CCEEEE-ECCTTSSHHHHHHHHHHH----SSSCEEEEEHHH
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHHH----cCCCeEEeecch
Confidence            356665 599999999999977664    455777777664

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.50  E-value=0.0039  Score=46.25  Aligned_cols=33  Identities=33%  Similarity=0.502  Sum_probs=24.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+.|.++ +-.|+||||++..||..|    |.+  ++|.|
T Consensus         2 ~~~Iil~-G~~GsGKSTia~~LA~~L----g~~--~id~D   34 (170)
T d1e6ca_           2 TEPIFMV-GARGCGMTTVGRELARAL----GYE--FVDTD   34 (170)
T ss_dssp             CCCEEEE-SCTTSSHHHHHHHHHHHH----TCE--EEEHH
T ss_pred             CCCEEEE-CCCCCCHHHHHHHHHHHh----CCC--EEehh
Confidence            4556666 669999999999887555    445  56876

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {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: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=95.48  E-value=0.0038  Score=45.39  Aligned_cols=32  Identities=38%  Similarity=0.495  Sum_probs=23.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      |.|.++ +-.|+||||+|..||..|    |.++  +|.|
T Consensus         3 k~I~l~-G~~GsGKSTvak~La~~L----~~~~--id~~   34 (169)
T d1kaga_           3 RNIFLV-GPMGAGKSTIGRQLAQQL----NMEF--YDSD   34 (169)
T ss_dssp             CCEEEE-CCTTSCHHHHHHHHHHHT----TCEE--EEHH
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHh----CCCe--Eeec
Confidence            556665 999999999999887654    5554  4655

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.39  E-value=0.038  Score=40.15  Aligned_cols=90  Identities=10%  Similarity=0.042  Sum_probs=53.6

Q ss_pred             CCccEEEEcCCCCCCccc-hhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQ-LTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCFICPHCS  211 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~-~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~  211 (295)
                      ..+.+.+.|+++...... .....+..+|.++++.+... .++..+...+..+.+    .+.++ .+|.|+.|.....  
T Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-~lvgnK~Dl~~~~--  125 (165)
T d1z06a1          49 ERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPR-ILVGNKCDLRSAI--  125 (165)
T ss_dssp             EEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCE-EEEEECTTCGGGC--
T ss_pred             cceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeE-EEEeccccchhcc--
Confidence            456678888875432211 11223457898888877654 467776666665543    23444 5999999853221  


Q ss_pred             CCccccCCchhhHHHHHhCCcEE
Q 022525          212 EPSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                          ....+..+++++.++.++.
T Consensus       126 ----~v~~~~~~~~~~~~~~~~~  144 (165)
T d1z06a1         126 ----QVPTDLAQKFADTHSMPLF  144 (165)
T ss_dssp             ----CSCHHHHHHHHHHTTCCEE
T ss_pred             ----chhHHHHHHHHHHCCCEEE
Confidence                1233456778888876654

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.38  E-value=0.014  Score=42.51  Aligned_cols=31  Identities=26%  Similarity=0.265  Sum_probs=27.0

Q ss_pred             CCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           40 KGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        40 kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      --|=||||.|..+|...+- +|+||++|-+=-
T Consensus        10 G~GKGKTTAAlG~alRA~G-~G~rV~ivQFlK   40 (157)
T d1g5ta_          10 GNGKGKTTAAFGTAARAVG-HGKNVGVVQFIK   40 (157)
T ss_dssp             SSSSCHHHHHHHHHHHHHH-TTCCEEEEESSC
T ss_pred             CCCCCcHHHHHHHHHHHhc-CCCEEEEEEEec
Confidence            3577999999999999999 999999996543

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.37  E-value=0.008  Score=46.56  Aligned_cols=41  Identities=15%  Similarity=0.099  Sum_probs=32.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +.++.| .+..|+|||+++.+++...+...+.+|+.++++..
T Consensus        26 G~~~~I-~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~   66 (242)
T d1tf7a1          26 GRSTLV-SGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEET   66 (242)
T ss_dssp             TSEEEE-EESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             CeEEEE-EeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCC
Confidence            355555 59999999999999998766526789999988753

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.32  E-value=0.083  Score=44.60  Aligned_cols=64  Identities=13%  Similarity=0.112  Sum_probs=40.3

Q ss_pred             CCccEEEEcCCCCCCccc------hhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQ------LTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      +..+++++|||+ ++...      .....+..+|.++++......  ..-...++.+.+.+.+++ +|+|+++.
T Consensus       105 ~~~~~~l~DtPG-~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~--~~d~~l~~~l~~~~k~~~-~V~nK~D~  174 (400)
T d1tq4a_         105 NIPNVVFWDLPG-IGSTNFPPDTYLEKMKFYEYDFFIIISATRFK--KNDIDIAKAISMMKKEFY-FVRTKVDS  174 (400)
T ss_dssp             SCTTEEEEECCC-GGGSSCCHHHHHHHTTGGGCSEEEEEESSCCC--HHHHHHHHHHHHTTCEEE-EEECCHHH
T ss_pred             CCCeEEEEeCCC-cccccccHHHHHHHhhhhcceEEEEecCCCCC--HHHHHHHHHHHHcCCCEE-EEEeCccc
Confidence            345689999995 43221      222334567888888765432  233466777777776664 99999873

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.32  E-value=0.045  Score=39.74  Aligned_cols=67  Identities=9%  Similarity=0.055  Sum_probs=41.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeC-CCcchHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVST-PQDVALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~-~~~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.+.|+|+...........+..++.++++.. .+..++..+...+..+..    .+.+ +.+|.|+.|.
T Consensus        44 ~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~nK~Dl  115 (165)
T d1ksha_          44 RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT-LLIFANKQDL  115 (165)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTS
T ss_pred             cccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCc-eEEEEecccc
Confidence            56789999998533221233344556788877776 555567666666554432    2344 4588999984

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.27  E-value=0.056  Score=39.59  Aligned_cols=67  Identities=10%  Similarity=0.029  Sum_probs=42.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|++...............+|.++++... +..++..+...+..+..    .+.|+ -+|.|+.|.
T Consensus        58 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pi-llv~nK~Dl  129 (176)
T d1fzqa_          58 QGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPV-LIFANKQDL  129 (176)
T ss_dssp             TTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCE-EEEEECTTS
T ss_pred             CCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeE-EEEEEeccc
Confidence            567788999986444323334556678888877764 44567666655554433    23454 489999984

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.07  E-value=0.2  Score=36.29  Aligned_cols=93  Identities=18%  Similarity=0.130  Sum_probs=55.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc--CCCCeeeEEeccccCCCCCCCCCc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK--VQVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~--~~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      ..+.+-|.|+++...........+..+|.++++.... ..++..+...+.....  .......+|.|+.+......   .
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~---~  126 (170)
T d1ek0a_          50 HTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGG---E  126 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSC---C
T ss_pred             ccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccc---h
Confidence            5678999999865543344444566789888887654 4467666666654433  23445568899987532211   1


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                      .........++.+..+.++
T Consensus       127 ~~v~~~~~~~~~~~~~~~~  145 (170)
T d1ek0a_         127 RKVAREEGEKLAEEKGLLF  145 (170)
T ss_dssp             CCSCHHHHHHHHHHHTCEE
T ss_pred             hhhhHHHHHHHHHHcCCEE
Confidence            1112234566677666544

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.06  E-value=0.017  Score=43.96  Aligned_cols=34  Identities=32%  Similarity=0.387  Sum_probs=29.8

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      |+| .+--|+||||++..|+..|.. .|.+|.++..
T Consensus         3 I~i-eG~dGsGKST~~~~L~~~l~~-~g~~v~~~~~   36 (208)
T d1gsia_           3 IAI-EGVDGAGKRTLVEKLSGAFRA-AGRSVATLAF   36 (208)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHHHHHH-TTCCEEEEES
T ss_pred             EEE-ECCCCCCHHHHHHHHHHHHHH-CCCCEEEEec
Confidence            444 688999999999999999999 9999988753

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.83  E-value=0.1  Score=37.79  Aligned_cols=88  Identities=14%  Similarity=0.080  Sum_probs=50.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+.+.|++...............++.++++...+. .++..+...+..+.+    .+.++ .+|.|+.+...     
T Consensus        49 ~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~-----  122 (166)
T d1ctqa_          49 ETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM-VLVGNKCDLAA-----  122 (166)
T ss_dssp             EEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCE-EEEEECTTCSC-----
T ss_pred             eeeeeeeeeccCccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeE-EEEeccccccc-----
Confidence            34567777887544322233334456787777777544 456666665555543    23454 58999998421     


Q ss_pred             CccccCCchhhHHHHHhCCcE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~  233 (295)
                        .....+..+++.+.++.++
T Consensus       123 --~~~~~~~~~~~~~~~~~~~  141 (166)
T d1ctqa_         123 --RTVESRQAQDLARSYGIPY  141 (166)
T ss_dssp             --CCSCHHHHHHHHHHHTCCE
T ss_pred             --ccccHHHHHHHHHHhCCeE
Confidence              1122345667777776543

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.75  E-value=0.012  Score=45.09  Aligned_cols=34  Identities=41%  Similarity=0.576  Sum_probs=25.8

Q ss_pred             Ce-EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KD-VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~-vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      || +|+++ +.-|+||||++-    .|.+ .|.+|  +|+|--
T Consensus         2 mk~iIgit-G~igSGKStv~~----~l~~-~G~~v--idaD~i   36 (208)
T d1vhta_           2 LRYIVALT-GGIGSGKSTVAN----AFAD-LGINV--IDADII   36 (208)
T ss_dssp             CCEEEEEE-CCTTSCHHHHHH----HHHH-TTCEE--EEHHHH
T ss_pred             CCEEEEEE-CCCcCCHHHHHH----HHHH-CCCcE--EEchHH
Confidence            45 88887 555999999875    5788 89876  588743

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.66  E-value=0.013  Score=42.13  Aligned_cols=33  Identities=27%  Similarity=0.277  Sum_probs=21.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++| ++.+..|+||||+|..|    .+ .......++.|
T Consensus         3 klI-ii~G~pGsGKTTla~~L----~~-~~~~~~~~~~d   35 (152)
T d1ly1a_           3 KII-LTIGCPGSGKSTWAREF----IA-KNPGFYNINRD   35 (152)
T ss_dssp             EEE-EEECCTTSSHHHHHHHH----HH-HSTTEEEECHH
T ss_pred             EEE-EEECCCCCCHHHHHHHH----HH-hCCCCEEechH
Confidence            444 55799999999998765    33 23345556554

>d1e8ca3 c.72.2.1 (A:104-337) UDP-N-acetylmuramyl tripeptide synthetase MurE {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramyl tripeptide synthetase MurE
species: Escherichia coli [TaxId: 562]

Probab=94.65  E-value=0.023  Score=43.94  Aligned_cols=35  Identities=23%  Similarity=0.137  Sum_probs=30.9

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ...++|+|+   |-.||||++.-|++.|.. .|+++.++
T Consensus         3 ~~~~vI~IT---GT~GKTTt~~~l~~iL~~-~g~~~~~~   37 (234)
T d1e8ca3           3 DNLRLVGVT---GTNGKTTTTQLLAQWSQL-LGEISAVM   37 (234)
T ss_dssp             GSSEEEEEE---SSSCHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             cCCeEEEEE---CCCcHHHHHHHHHHHHHH-CCCCeEEE
Confidence            346999998   557999999999999999 99999886

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

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: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=94.64  E-value=0.0085  Score=51.85  Aligned_cols=52  Identities=31%  Similarity=0.308  Sum_probs=42.7

Q ss_pred             CCeEEEEee---CCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCC
Q 022525           30 VKDVIAVAS---GKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQK   85 (295)
Q Consensus        30 ~~~vI~i~s---~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~   85 (295)
                      .+|.|.|++   ..-|.||||++..|+.+|++ .|+++.+.   ..+|++--.||++..
T Consensus        50 ~gklilVTaitPTp~GEGKtTttiGL~~aL~~-lgk~~~~~---lRePSlGP~fGiKGG  104 (549)
T d1eg7a_          50 DGKLILVTAITPTPAGEGKTTTSVGLTDALAR-LGKRVMVC---LREPSLGPSFGIKGG  104 (549)
T ss_dssp             CCEEEEEEESSCCTTCCCHHHHHHHHHHHHHH-TTCCEEEE---ECCCCSTHHHHTTCC
T ss_pred             CceEEEEEeCCCCCCCCCcceeHHhHHHHHHH-hCCceEEE---EecCCCCCccccccC
Confidence            378887765   56799999999999999999 99998765   456777778888764

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=94.41  E-value=0.017  Score=46.39  Aligned_cols=26  Identities=23%  Similarity=0.257  Sum_probs=20.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      ..+|+|+ +-||+||||+|.++.....
T Consensus        44 ~~~v~I~-GmgGiGKTtLA~~v~~~~~   69 (277)
T d2a5yb3          44 SFFLFLH-GRAGSGKSVIASQALSKSD   69 (277)
T ss_dssp             SEEEEEE-CSTTSSHHHHHHHHHHHCS
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHhhh
Confidence            4677776 7999999999998876543

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.40  E-value=0.12  Score=37.82  Aligned_cols=67  Identities=15%  Similarity=0.116  Sum_probs=41.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHH-HHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGI-TMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~-~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+-|.|+++...........+..+|.++++.+.+. .++....... +.+..  .+.+++ +|.|+.|.
T Consensus        48 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~pii-lvgnK~Dl  118 (177)
T d1kmqa_          48 KQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPII-LVGNKKDL  118 (177)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEE-EEEECGGG
T ss_pred             cceeeeccccCccchhcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceE-Eeeecccc
Confidence            55778999998654432333344557899888876654 4565554332 23332  345554 88899984

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=94.36  E-value=0.011  Score=43.27  Aligned_cols=30  Identities=47%  Similarity=0.460  Sum_probs=23.1

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      |.++ +-.|+||||++..||..|.-      -++|.|
T Consensus         3 I~li-G~~GsGKsTi~k~La~~l~~------~~~d~d   32 (161)
T d1viaa_           3 IVFI-GFMGSGKSTLARALAKDLDL------VFLDSD   32 (161)
T ss_dssp             EEEE-CCTTSCHHHHHHHHHHHHTC------EEEEHH
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHhCC------CEEecC
Confidence            5555 67999999999988877744      456876

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.24  E-value=0.013  Score=45.60  Aligned_cols=30  Identities=20%  Similarity=0.205  Sum_probs=24.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCe
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLK   63 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~   63 (295)
                      .+.+..+-.|+|||+++.++|..++. .|..
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~~~~-~~~~   64 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVNLQN-PEFL   64 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTC-GGGE
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHh-cCCC
Confidence            34444689999999999999999987 5543

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.09  E-value=0.01  Score=43.61  Aligned_cols=31  Identities=45%  Similarity=0.598  Sum_probs=22.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++| ++ +-.|+||||++..||..|    |..  ++|.|
T Consensus         3 ~Iv-li-G~~G~GKSTig~~La~~l----~~~--fiD~D   33 (165)
T d2iyva1           3 KAV-LV-GLPGSGKSTIGRRLAKAL----GVG--LLDTD   33 (165)
T ss_dssp             SEE-EE-CSTTSSHHHHHHHHHHHH----TCC--EEEHH
T ss_pred             cEE-EE-CCCCCCHHHHHHHHHHHh----CCC--eEeec
Confidence            545 44 779999999999888665    445  46877

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.09  E-value=0.032  Score=44.88  Aligned_cols=42  Identities=29%  Similarity=0.334  Sum_probs=32.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhC--CCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKC--QLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~--g~~VlliD~D~~~   73 (295)
                      +-+|+| ++-.|+||||+|..|...|.+..  +.+|.+|..|-..
T Consensus        27 P~iIGi-~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          27 PLFIFF-SGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             CEEEEE-ECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             CEEEEe-ECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            456666 68899999999999988887623  3578889888654

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=93.97  E-value=0.021  Score=41.71  Aligned_cols=29  Identities=34%  Similarity=0.494  Sum_probs=20.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVG   65 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vl   65 (295)
                      |+++ ++ +..|+||||+|..||..    .|.+++
T Consensus         5 ~~I~-i~-G~pGsGKTTia~~La~~----l~~~~i   33 (173)
T d1rkba_           5 PNIL-LT-GTPGVGKTTLGKELASK----SGLKYI   33 (173)
T ss_dssp             CCEE-EE-CSTTSSHHHHHHHHHHH----HCCEEE
T ss_pred             CEEE-EE-CCCCCCHHHHHHHHHHH----HCCcEE
Confidence            3444 43 77799999999977743    466653

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=93.88  E-value=0.023  Score=41.60  Aligned_cols=24  Identities=33%  Similarity=0.446  Sum_probs=17.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      ..|+++ +..|+||||++..||..|
T Consensus         6 ~~I~i~-G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILIT-GTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEE-eCCCCCHHHHHHHHHHHh
Confidence            445554 899999999998776543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.83  E-value=0.029  Score=43.79  Aligned_cols=42  Identities=26%  Similarity=0.182  Sum_probs=32.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~~~   73 (295)
                      -.+.+..+..|+||||++.+++...+..     .+.+++.+++....
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTF   82 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCC
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchh
Confidence            3455556899999999999999998851     36788888887554

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.73  E-value=0.027  Score=42.24  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=18.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      .+|.|. +..|+||||.|..||..+
T Consensus         2 ~iI~i~-GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVL-GGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            567776 459999999999887644

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {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: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.58  E-value=0.035  Score=40.43  Aligned_cols=27  Identities=30%  Similarity=0.405  Sum_probs=21.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      +.++|.++ +-.|+||||++..||..|.
T Consensus         5 ~~~iivl~-G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           5 DHHIYVLM-GVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TSEEEEEE-CSTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHhC
Confidence            35667664 8888999999999887653

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=93.56  E-value=0.024  Score=42.18  Aligned_cols=67  Identities=18%  Similarity=0.223  Sum_probs=49.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcchHHHHHHHHHHHhcCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDVALIDARKGITMFSKVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.++|+|............+..+|.++++......-..........+...+.|++ +|+||+|.
T Consensus        57 ~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p~i-iv~NKiD~  123 (179)
T d1wb1a4          57 ENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPII-VVITKSDN  123 (179)
T ss_dssp             TTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCBC-EEEECTTS
T ss_pred             CCccccccccccccccccchhhhhhhccccccccccccccchhhhhhhhhhhhcCCcce-eccccccc
Confidence            56778899998654432334455667899998888777666666777888888888865 89999984

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.52  E-value=0.027  Score=42.37  Aligned_cols=25  Identities=36%  Similarity=0.413  Sum_probs=20.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      .++|.|+ +..|+||||+|..||..+
T Consensus         8 ~~iI~i~-GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           8 VSVIFVL-GGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            5788887 666999999999886644

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.46  E-value=0.02  Score=44.45  Aligned_cols=42  Identities=21%  Similarity=0.101  Sum_probs=32.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH-----hCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS-----KCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~-----~~g~~VlliD~D~~~   73 (295)
                      ++++-| .+..|+||||++.+++...+.     ..|.+++.+|.....
T Consensus        34 G~~~li-~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~   80 (251)
T d1szpa2          34 GSITEL-FGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTF   80 (251)
T ss_dssp             SSEEEE-EESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCC
T ss_pred             CeEEEE-EcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchH
Confidence            344444 689999999999999877543     047889999988765

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=93.43  E-value=0.055  Score=42.75  Aligned_cols=20  Identities=55%  Similarity=0.758  Sum_probs=15.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNL   52 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~L   52 (295)
                      -.|+++ ++.|+||||+.-.|
T Consensus        33 l~I~Lv-G~tg~GKSSliN~i   52 (257)
T d1h65a_          33 LTILVM-GKGGVGKSSTVNSI   52 (257)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHH
T ss_pred             cEEEEE-CCCCCcHHHHHHHH
Confidence            445555 89999999987744

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=93.29  E-value=0.017  Score=45.81  Aligned_cols=35  Identities=23%  Similarity=0.316  Sum_probs=24.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ++.|.+ .+..|+||||+|..||..    .+...+.|++|
T Consensus        32 P~~ilL-~GpPGtGKT~la~~la~~----~~~~~~~i~~d   66 (273)
T d1gvnb_          32 PTAFLL-GGQPGSGKTSLRSAIFEE----TQGNVIVIDND   66 (273)
T ss_dssp             CEEEEE-ECCTTSCTHHHHHHHHHH----TTTCCEEECTH
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHH----hhcceEEEecH
Confidence            455554 589999999998766553    45577777664

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=93.19  E-value=0.03  Score=42.92  Aligned_cols=25  Identities=36%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +|+ ..+..|+||||+|..||..|.-
T Consensus         5 ~Ia-IdGp~GsGKgT~ak~La~~lg~   29 (223)
T d1q3ta_           5 QIA-IDGPASSGKSTVAKIIAKDFGF   29 (223)
T ss_dssp             EEE-EECSSCSSHHHHHHHHHHHHCC
T ss_pred             EEE-EECCCCCCHHHHHHHHHHHhCC
Confidence            445 4799999999999988877654

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {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: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.13  E-value=0.069  Score=40.52  Aligned_cols=39  Identities=18%  Similarity=0.275  Sum_probs=32.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++-|+|- +--|+||||.+..|+..|.. .|.++.++-.-|
T Consensus         2 gkfIviE-G~dGsGKsT~~~~L~~~L~~-~g~~~~~~~~ep   40 (210)
T d4tmka_           2 SKYIVIE-GLEGAGKTTARNVVVETLEQ-LGIRDMVFTREP   40 (210)
T ss_dssp             CCEEEEE-ECTTSCHHHHHHHHHHHHHH-TTCCCEEEEESS
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHHHh-CCCCeEEEecCC
Confidence            5778875 77889999999999999999 998876665544

>d1ckea_ c.37.1.1 (A:) CMP kinase {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: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=93.08  E-value=0.038  Score=42.15  Aligned_cols=27  Identities=37%  Similarity=0.491  Sum_probs=22.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +++|+| ++..|+||||+|..||..|.-
T Consensus         3 ~piI~I-~GppGSGKgT~ak~La~~~gl   29 (225)
T d1ckea_           3 APVITI-DGPSGAGKGTLCKAMAEALQW   29 (225)
T ss_dssp             SCEEEE-ECCTTSSHHHHHHHHHHHHTC
T ss_pred             CCEEEE-ECCCCCCHHHHHHHHHHHhCC
Confidence            467777 588999999999988887754

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.06  E-value=0.55  Score=33.62  Aligned_cols=67  Identities=13%  Similarity=0.061  Sum_probs=44.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc----CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK----VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|+++..............+|.++++... +..++..+...+..+.+    .+.++ .+|.|+.+.
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~-ilvgnK~Dl  120 (167)
T d1c1ya_          49 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPM-ILVGNKCDL  120 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCE-EEEEECTTC
T ss_pred             eEEEeccccccCcccccccccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeE-EEEEEecCc
Confidence            457788999986555433433445578988888766 44577777766665543    23444 499999985

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=93.04  E-value=0.063  Score=41.14  Aligned_cols=34  Identities=21%  Similarity=0.135  Sum_probs=30.4

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           36 VASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +..+..|+|||.++..++..+.. .+.+|+.+++.
T Consensus        40 ~l~G~~G~GKTHLl~A~~~~~~~-~~~~~~~~~~~   73 (213)
T d1l8qa2          40 FIYGSVGTGKTHLLQAAGNEAKK-RGYRVIYSSAD   73 (213)
T ss_dssp             EEECSSSSSHHHHHHHHHHHHHH-TTCCEEEEEHH
T ss_pred             EEECCCCCcHHHHHHHHHHHhcc-CccceEEechH
Confidence            34589999999999999999999 99999999765

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=92.94  E-value=0.045  Score=40.99  Aligned_cols=25  Identities=32%  Similarity=0.497  Sum_probs=19.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +++|.|. +..|+||||+|..||..+
T Consensus         6 p~iI~i~-G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           6 PNVVFVL-GGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEE-ESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHH
Confidence            5677665 788999999998887544

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.91  E-value=0.044  Score=41.63  Aligned_cols=34  Identities=29%  Similarity=0.466  Sum_probs=26.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      |..+|+++ +.-|+||||++-    .|.+ .|..|  +|+|-
T Consensus         1 M~~iIgIT-G~igSGKStv~~----~l~~-~G~~v--idaD~   34 (205)
T d1jjva_           1 MTYIVGLT-GGIGSGKTTIAN----LFTD-LGVPL--VDADV   34 (205)
T ss_dssp             CCEEEEEE-CSTTSCHHHHHH----HHHT-TTCCE--EEHHH
T ss_pred             CcEEEEEE-CCCCCCHHHHHH----HHHH-CCCeE--EEchH
Confidence            45788887 778899999754    6678 89887  58874

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=92.63  E-value=0.044  Score=41.11  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=19.6

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHH
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAV   54 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~   54 (295)
                      .+++++|.+  +..|+||||++..||.
T Consensus         4 ~r~mrIili--G~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           4 ARLLRAAIM--GAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SCCCEEEEE--CCTTSSHHHHHHHHHH
T ss_pred             CcceeEEEE--CCCCCCHHHHHHHHHH
Confidence            445677765  8899999999987765

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=92.50  E-value=0.061  Score=40.07  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=18.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +++|.+  +..|+||||+|..||..+
T Consensus         4 ~riil~--G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           4 VRAVLL--GPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CEEEEE--CCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEE--CCCCCCHHHHHHHHHHHh
Confidence            466643  999999999999887644

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {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: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=92.41  E-value=0.16  Score=40.02  Aligned_cols=34  Identities=18%  Similarity=0.198  Sum_probs=24.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      ++.|-+ .+..|+|||+++..+|..+    |.+++.|++
T Consensus        45 ~~~iLL-~GppGtGKT~la~~iA~~~----~~~~~~i~~   78 (256)
T d1lv7a_          45 PKGVLM-VGPPGTGKTLLAKAIAGEA----KVPFFTISG   78 (256)
T ss_dssp             CCEEEE-ECCTTSCHHHHHHHHHHHH----TCCEEEECS
T ss_pred             CCeEEe-eCCCCCCccHHHHHHHHHc----CCCEEEEEh
Confidence            344544 5889999999999888654    557766644

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.37  E-value=0.074  Score=36.57  Aligned_cols=39  Identities=8%  Similarity=0.059  Sum_probs=32.5

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhC--CCeEEEEEeC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKC--QLKVGLLDAD   70 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~--g~~VlliD~D   70 (295)
                      ++-+|.++ +-.|+||+|+|..|-..|-+ .  |++|-++|.|
T Consensus         5 qgf~i~~t-g~~~~gk~~ia~al~~~l~q-~~G~R~vtll~~~   45 (122)
T d1g8fa3           5 QGFSIVLG-NSLTVSREQLSIALLSTFLQ-FGGGRYYKIFEHN   45 (122)
T ss_dssp             CCEEEEEC-TTCCSCHHHHHHHHHHHHTT-SCSCCCEEECCCT
T ss_pred             cceEEEEe-CCCCCCHHHHHHHHHHHHHH-hcCCcceEEecCC
Confidence            36677775 77899999999999999887 4  6899999887

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=92.25  E-value=0.05  Score=40.81  Aligned_cols=29  Identities=24%  Similarity=0.330  Sum_probs=21.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKV   64 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~V   64 (295)
                      +++|.+. +..|+||||+|..||.   + .|...
T Consensus         8 ~~iI~l~-G~pGSGKsT~a~~La~---~-~g~~~   36 (194)
T d3adka_           8 SKIIFVV-GGPGSGKGTQCEKIVQ---K-YGYTH   36 (194)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHH---H-TCCEE
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHH---H-hCCee
Confidence            5788887 5599999999997755   3 55544

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=92.12  E-value=0.13  Score=38.70  Aligned_cols=25  Identities=28%  Similarity=0.517  Sum_probs=21.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      .+|.+  +..|||||+++-.||..++.
T Consensus        45 n~lLv--G~pGVGKTalv~~LA~ri~~   69 (195)
T d1jbka_          45 NPVLI--GEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             EEEEE--CCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEE--ecCCcccHHHHHHHHHHHHh
Confidence            55555  99999999999999999996

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.10  E-value=0.05  Score=42.26  Aligned_cols=31  Identities=23%  Similarity=0.134  Sum_probs=21.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      |++|+++|+ -|+||||+|.-    |++..|..+  +|
T Consensus         1 M~iIgiTG~-igSGKsTva~~----l~e~~g~~~--i~   31 (241)
T d1deka_           1 MKLIFLSGV-KRSGKDTTADF----IMSNYSAVK--YQ   31 (241)
T ss_dssp             CEEEEEECC-TTSSHHHHHHH----HHHHSCEEE--CC
T ss_pred             CEEEEEECC-CCCCHHHHHHH----HHHhCCCeE--Ec
Confidence            689999855 69999998874    444256543  56

>d1s1ma2 c.37.1.10 (A:1-266) CTP synthase PyrG, N-terminal domain {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: CTP synthase PyrG, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.08  E-value=0.9  Score=35.17  Aligned_cols=167  Identities=14%  Similarity=0.150  Sum_probs=88.6

Q ss_pred             CeEEEEe-eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccc----cc----------cCccc
Q 022525           31 KDVIAVA-SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEV----TK----------DMKMV   95 (295)
Q Consensus        31 ~~vI~i~-s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~----~~----------~~~~~   95 (295)
                      .|-|.++ +--.|.||-.+|+.+|..|.. +|++|..+-+||-- +...-.--+-+++-    .|          ..+..
T Consensus         3 tkyifvtGGV~S~lGKGi~~aSig~llk~-~g~~V~~~K~DPYl-NvD~GtmsP~eHGEvfVt~DG~EtDlDlG~YERFl   80 (266)
T d1s1ma2           3 TNYIFVTGGVVSSLGKGIAAASLAAILEA-RGLNVTIMKLDPYI-NVDPGTMSPIQHGEVFVTEDGAETDLDLGHYERFI   80 (266)
T ss_dssp             CEEEEEEECSSSCSCHHHHHHHHHHHHHT-TTCCEEEEEEECCS-CSCGGGSCTTTSCCCEECTTSCEECTHHHHHHHHC
T ss_pred             ceEEEEeCCcccccchHHHHHHHHHHHHh-CCceeEEEecccce-ecCCCCCCchhhceeEEeccccccccCccceeccC
Confidence            3545544 446789999999999999999 99999999999864 22211111111110    00          00011


Q ss_pred             ccccCCceeecccc-------------ccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch-----h
Q 022525           96 PIENYGVKCMSMGF-------------LVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL-----T  157 (295)
Q Consensus        96 ~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~-----~  157 (295)
                      ......-..+..|.             +......   --+...+.+++.+.... ..+|++|+..++..++-.-     +
T Consensus        81 ~~~l~~~~niTtGkiy~~Vi~kER~G~yLG~TVQ---vIPHiTdeIk~~I~~~~-~~~Di~ivEiGGTVGDIEs~pFlEA  156 (266)
T d1s1ma2          81 RTKMSRRNNFTTGRIYSDVLRKERRGDYLGATVQ---VIPHITNAIKERVLEGG-EGHDVVLVEIGGTVGDIESLPFLEA  156 (266)
T ss_dssp             SSCCCGGGEEEHHHHHHHHHHHHHTTTTTTCCCC---HHHHHHHHHHHHHHHHH-TTCSEEEEEECSCTTSSTTHHHHHH
T ss_pred             CCCCcCccccchhHHHHHHHHHhhccccccCccc---ccCchHHHHHHHHHhcC-CCCCEEEEeccceechhhcchHHHH
Confidence            10000011111110             1111000   01123466777777766 8899999999988774210     0


Q ss_pred             hhhh---ccCc-eE-----EEe--eCCCcchHHHHHHHHHHHhcCCCCeeeEEecccc
Q 022525          158 TTQT---LQLS-GA-----LIV--STPQDVALIDARKGITMFSKVQVPILGLVENMSC  204 (295)
Q Consensus       158 ~~~l---~~ad-~v-----iiv--~~~~~~s~~~~~~~~~~l~~~~~~~~~~ViN~~~  204 (295)
                      +..+   ...+ .+     ++|  -.....--..++..++.++..|+.+- +++-+..
T Consensus       157 iRQl~~e~g~~n~~~iHvtlvP~l~~~gE~KTKPTQhSVkeLrs~GIqPD-ilvcRse  213 (266)
T d1s1ma2         157 IRQMAVEIGREHTLFMHLTLVPYMAASGEVKTKPTQHSVKELLSIGIQPD-ILICRSD  213 (266)
T ss_dssp             HHHHHHHHCTTSEEEEEEEECCEETTTTEECCHHHHHHHHHHHTTTCCCS-EEEEEES
T ss_pred             HHHHHHhcCCCCEEEEeeccceeeccccccccchHHHHHHHHHhcCCCCC-eEeeccc
Confidence            1111   0122 22     222  11244456677888889999998774 4556554

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=91.96  E-value=0.066  Score=39.60  Aligned_cols=18  Identities=33%  Similarity=0.422  Sum_probs=15.8

Q ss_pred             CCCCCcHHHHHHHHHHHH
Q 022525           39 GKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        39 ~kGGvGKTt~a~~LA~~l   56 (295)
                      +..|+||||+|..||..+
T Consensus         7 G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           7 GLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             CSTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHH
Confidence            899999999999888665

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=91.82  E-value=0.47  Score=37.38  Aligned_cols=25  Identities=36%  Similarity=0.562  Sum_probs=22.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      .++.|  +..|||||+++..||+.+..
T Consensus        41 n~lLV--G~~GvGKTalv~~la~ri~~   65 (268)
T d1r6bx2          41 NPLLV--GESGVGKTAIAEGLAWRIVQ   65 (268)
T ss_dssp             EEEEE--CCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEE--CCCCCcHHHHHHHHHHHHHh
Confidence            56655  99999999999999999997

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=91.75  E-value=0.072  Score=39.17  Aligned_cols=19  Identities=37%  Similarity=0.485  Sum_probs=15.6

Q ss_pred             eCCCCCcHHHHHHHHHHHH
Q 022525           38 SGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~l   56 (295)
                      -+..|+||||+|..||..+
T Consensus         6 ~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           6 MGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             ECSTTSSHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHH
Confidence            3889999999998776654

>d2gc6a2 c.72.2.2 (A:1-296) Folylpolyglutamate synthetase {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: Folylpolyglutamate synthetase
domain: Folylpolyglutamate synthetase
species: Lactobacillus casei [TaxId: 1582]

Probab=91.74  E-value=0.12  Score=41.65  Aligned_cols=36  Identities=33%  Similarity=0.410  Sum_probs=31.8

Q ss_pred             CCCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           28 DGVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        28 ~~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ++..|+|+|+   |=-||||++.-++..|.. .|++|.++
T Consensus        36 ~~~lkvI~VT---GTNGKtST~~~i~~IL~~-~G~kvG~~   71 (296)
T d2gc6a2          36 QQQGRYIHVT---GTNGKGSAANAIAHVLEA-SGLTVGLY   71 (296)
T ss_dssp             GGSSCEEEEE---CSSSHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             hhhCCEEEEe---ccCcHHHHHHHHHHHHHh-cCCceeee
Confidence            3447999998   667999999999999999 99999887

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=91.51  E-value=0.071  Score=39.68  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=16.5

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHH
Q 022525           34 IAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      |.|. +..|+||||+|..||..+
T Consensus         6 I~i~-GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           6 VMIS-GAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             EEEE-ESTTSSHHHHHHHHHHHH
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHH
Confidence            4454 667999999998776555

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.39  E-value=1  Score=35.61  Aligned_cols=67  Identities=15%  Similarity=0.054  Sum_probs=36.1

Q ss_pred             CccEEEEcCCCCCCcc-------------chhhhhhccCceEEEeeC-CC-cchHHHHHHHHHHHhcCCCCeeeEEeccc
Q 022525          139 NLDILVIDMPPGTGDA-------------QLTTTQTLQLSGALIVST-PQ-DVALIDARKGITMFSKVQVPILGLVENMS  203 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~-------------~~~~~~l~~ad~viiv~~-~~-~~s~~~~~~~~~~l~~~~~~~~~~ViN~~  203 (295)
                      ..+++|||+|+-....             .....-+...+.+++.+. .. ......+....+.+...+.+. .+|+|+.
T Consensus       124 ~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~~~~r~-i~Vltk~  202 (299)
T d2akab1         124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRT-IGVITKL  202 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSE-EEEEECG
T ss_pred             CCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCcCCCce-eeEEecc
Confidence            4579999999633211             001112234554444333 32 233445566666665455455 4899999


Q ss_pred             cCC
Q 022525          204 CFI  206 (295)
Q Consensus       204 ~~~  206 (295)
                      +..
T Consensus       203 D~~  205 (299)
T d2akab1         203 DLM  205 (299)
T ss_dssp             GGS
T ss_pred             ccc
Confidence            854

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=91.20  E-value=0.091  Score=38.72  Aligned_cols=18  Identities=56%  Similarity=0.713  Sum_probs=16.0

Q ss_pred             CCCCCcHHHHHHHHHHHH
Q 022525           39 GKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        39 ~kGGvGKTt~a~~LA~~l   56 (295)
                      +..|+||||+|..||..+
T Consensus         7 G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           7 GPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             CCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHH
Confidence            899999999999888665

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=91.17  E-value=0.12  Score=40.29  Aligned_cols=40  Identities=20%  Similarity=0.275  Sum_probs=29.5

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ..+.| .+..|+||||++..++..+....+.+++.+.+...
T Consensus        44 ~~lll-~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~   83 (276)
T d1fnna2          44 PRATL-LGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIY   83 (276)
T ss_dssp             CEEEE-ECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTC
T ss_pred             CceEE-ECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhh
Confidence            44444 58999999999999999997624566766655543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.94  E-value=0.055  Score=40.74  Aligned_cols=29  Identities=21%  Similarity=0.158  Sum_probs=23.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQ   61 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g   61 (295)
                      +.++.| .+..|+|||+++.++|...+. .+
T Consensus        23 G~v~~i-~G~~GsGKT~l~l~la~~~~~-~~   51 (242)
T d1n0wa_          23 GSITEM-FGEFRTGKTQICHTLAVTCQL-PI   51 (242)
T ss_dssp             TSEEEE-ECCTTSSHHHHHHHHHHHTTS-CG
T ss_pred             CEEEEE-EeCCCCCHHHHHHHHHHHHHH-hh
Confidence            345555 699999999999999998886 54

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.88  E-value=0.11  Score=38.20  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=19.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +++|.+  +..|+||||++..||..+
T Consensus         3 mrIvl~--G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IRMVLI--GPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CEEEEE--CCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEE--CCCCCCHHHHHHHHHHHh
Confidence            566655  889999999999887654

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.72  E-value=0.078  Score=39.05  Aligned_cols=22  Identities=36%  Similarity=0.329  Sum_probs=17.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLA   53 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA   53 (295)
                      +.+.++.+-.|+||||+|..|+
T Consensus        14 p~liil~G~pGsGKST~a~~l~   35 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHL   35 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4455557999999999988663

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.63  E-value=1.3  Score=31.68  Aligned_cols=90  Identities=13%  Similarity=0.065  Sum_probs=56.2

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+-+.|+++..............+|.++++.+. +..++..+...+..+.+    .+.++ .+|.|+.+....    
T Consensus        50 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~-ilvgnK~Dl~~~----  124 (169)
T d1x1ra1          50 QWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPM-ILVANKVDLMHL----  124 (169)
T ss_dssp             EEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCE-EEEEECTTCSTT----
T ss_pred             ccccccccccccccccccchhhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCccE-EEEecccchhhh----
Confidence            457788999997554333434445578988888766 44567776666555433    24444 488999985322    


Q ss_pred             CccccCCchhhHHHHHhCCcEE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKVI  234 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~~  234 (295)
                        .....+...++++.++.+++
T Consensus       125 --~~v~~e~~~~~~~~~~~~~~  144 (169)
T d1x1ra1         125 --RKVTRDQGKEMATKYNIPYI  144 (169)
T ss_dssp             --CCSCHHHHHHHHHHHTCCEE
T ss_pred             --ceeehhhHHHHHHHcCCEEE
Confidence              12223457778888876544

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=90.42  E-value=0.07  Score=42.06  Aligned_cols=27  Identities=26%  Similarity=0.335  Sum_probs=22.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..+.+..+..|+||||++..++..|.+
T Consensus        46 ~~~l~l~GppGtGKT~l~~~l~~~l~~   72 (287)
T d1w5sa2          46 NMIYGSIGRVGIGKTTLAKFTVKRVSE   72 (287)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHHHHHH
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHHh
Confidence            445566799999999999999999875

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=90.12  E-value=0.13  Score=37.43  Aligned_cols=20  Identities=35%  Similarity=0.549  Sum_probs=18.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHH
Q 022525           39 GKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        39 ~kGGvGKTt~a~~LA~~la~   58 (295)
                      +..|+||||+...++..+..
T Consensus         7 G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           7 GEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             CCTTSSHHHHHHHHHHHHGG
T ss_pred             CCCCcHHHHHHHHHHhcCCC
Confidence            88999999999999988876

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=89.83  E-value=0.11  Score=40.04  Aligned_cols=29  Identities=28%  Similarity=0.401  Sum_probs=19.8

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      +.| .+..|+||||+|..+|..    .+.....+
T Consensus        38 ~L~-~GPpGtGKT~lA~~la~~----~~~~~~~~   66 (238)
T d1in4a2          38 VLL-AGPPGLGKTTLAHIIASE----LQTNIHVT   66 (238)
T ss_dssp             EEE-ESSTTSSHHHHHHHHHHH----HTCCEEEE
T ss_pred             EEE-ECCCCCcHHHHHHHHHhc----cCCCcccc
Confidence            444 477999999998866654    44455544

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.82  E-value=0.81  Score=32.61  Aligned_cols=89  Identities=13%  Similarity=0.106  Sum_probs=54.5

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+-+.|+++......+.......+|.++++.+. +..++..+...+..+.+    .+.++ .+|.|+.+....    
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilvgnK~Dl~~~----  124 (167)
T d1xtqa1          50 QEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPI-MLVGNKKDLHME----  124 (167)
T ss_dssp             EEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCE-EEEEECTTCGGG----
T ss_pred             EEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccce-eeeccccccccc----
Confidence            457788999986544333444556678988888765 44567777666655532    34454 489999984321    


Q ss_pred             CccccCCchhhHHHHHhCCcE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~  233 (295)
                        .....+..++++++++.++
T Consensus       125 --r~v~~~~~~~~a~~~~~~~  143 (167)
T d1xtqa1         125 --RVISYEEGKALAESWNAAF  143 (167)
T ss_dssp             --CCSCHHHHHHHHHHHTCEE
T ss_pred             --cchhHHHHHHHHHHcCCEE
Confidence              1122244566777776543

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=89.66  E-value=0.19  Score=37.21  Aligned_cols=33  Identities=39%  Similarity=0.420  Sum_probs=25.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +-+|+|+ +.-|+||||+|-    .|.+ +|.+|+  ++|.
T Consensus         3 p~IIgit-G~~gSGKstva~----~l~~-~g~~~~--~~D~   35 (191)
T d1uf9a_           3 PIIIGIT-GNIGSGKSTVAA----LLRS-WGYPVL--DLDA   35 (191)
T ss_dssp             CEEEEEE-ECTTSCHHHHHH----HHHH-TTCCEE--EHHH
T ss_pred             CEEEEEE-CCCCCCHHHHHH----HHHH-CCCeEE--EccH
Confidence            4688886 778999999876    5668 898874  6553

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.52  E-value=0.15  Score=39.30  Aligned_cols=42  Identities=17%  Similarity=0.086  Sum_probs=30.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHh-----CCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASK-----CQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~-----~g~~VlliD~D~~~   73 (295)
                      +.++.| .+..|+|||+++.+++...+..     .+..|+.+|.....
T Consensus        37 G~~~~i-~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (258)
T d1v5wa_          37 MAITEA-FGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTF   83 (258)
T ss_dssp             SEEEEE-ECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCC
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHH
Confidence            345555 6899999999999999876540     24568888776543

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {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: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=89.49  E-value=0.13  Score=37.69  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=17.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVAL   56 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~l   56 (295)
                      +++.+  +..|+||||++..||..+
T Consensus         2 ~I~i~--G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILL--GAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEE--ESTTSSHHHHHHHHHHHH
T ss_pred             EEEEE--CCCCCCHHHHHHHHHHHh
Confidence            44443  777999999998887544

>d2jfga3 c.72.2.1 (A:94-297) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=89.40  E-value=0.29  Score=36.55  Aligned_cols=33  Identities=24%  Similarity=0.373  Sum_probs=28.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      .++|+|+   |-.||||++.-|++.|.. .|.++.+.
T Consensus        11 ~~vI~VT---GT~GKTTt~~~l~~iL~~-~g~~~~~~   43 (204)
T d2jfga3          11 APIVAIT---GSNGKSTVTTLVGEMAKA-AGVNVGVG   43 (204)
T ss_dssp             SCEEEEE---CSSSHHHHHHHHHHHHHH-TTCCEEEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHh-cCCCcccC
Confidence            5899997   567999999999999999 99888653

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=89.25  E-value=0.47  Score=34.13  Aligned_cols=89  Identities=15%  Similarity=0.033  Sum_probs=54.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc----CCCCeeeEEeccccCCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK----VQVPILGLVENMSCFICPHCSE  212 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~----~~~~~~~~ViN~~~~~~~~~~~  212 (295)
                      ..+.+.+.|+++...........+..+|.++++.... ..++..+...++.+.+    .+.++ .+|.|+.|....    
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-iivgnK~Dl~~~----  124 (168)
T d1u8za_          50 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF-LLVGNKSDLEDK----  124 (168)
T ss_dssp             EEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCE-EEEEECGGGGGG----
T ss_pred             ccccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcE-EEEecccccccc----
Confidence            4678899999976554333344455789888887754 5677777666665543    34454 489999985311    


Q ss_pred             CccccCCchhhHHHHHhCCcE
Q 022525          213 PSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       213 ~~~~~~~~~~~~~~~~~g~~~  233 (295)
                        .....+..+++.+.++.++
T Consensus       125 --~~v~~~~~~~~~~~~~~~~  143 (168)
T d1u8za_         125 --RQVSVEEAKNRADQWNVNY  143 (168)
T ss_dssp             --CCSCHHHHHHHHHHHTCEE
T ss_pred             --ccccHHHHHHHHHHcCCeE
Confidence              1122345667777777554

>d1fjha_ c.2.1.2 (A:) 3-alpha-hydroxysteroid dehydrogenase {Comamonas testosteroni [TaxId: 285]}

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: 3-alpha-hydroxysteroid dehydrogenase
species: Comamonas testosteroni [TaxId: 285]

Probab=89.10  E-value=0.15  Score=39.66  Aligned_cols=35  Identities=14%  Similarity=0.230  Sum_probs=30.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ||||.|+++.+|.|+-     +|..|++ .|.+|+++|.+.
T Consensus         1 mkVvlITGas~GIG~a-----iA~~la~-~Ga~V~~~~~~~   35 (257)
T d1fjha_           1 MSIIVISGCATGIGAA-----TRKVLEA-AGHQIVGIDIRD   35 (257)
T ss_dssp             CCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESSS
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCh
Confidence            6999999999999975     6888999 999999998764

>d2jfga1 c.5.1.1 (A:1-93) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=88.93  E-value=0.36  Score=31.21  Aligned_cols=36  Identities=8%  Similarity=0.152  Sum_probs=27.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +|.|+|+    |.|+|-.++  |..|++ +|.+|.+.|.....
T Consensus         5 ~K~v~Vi----GlG~sG~s~--a~~L~~-~g~~v~~~D~~~~~   40 (93)
T d2jfga1           5 GKNVVII----GLGLTGLSC--VDFFLA-RGVTPRVMDTRMTP   40 (93)
T ss_dssp             TCCEEEE----CCSHHHHHH--HHHHHH-TTCCCEEEESSSSC
T ss_pred             CCEEEEE----eECHHHHHH--HHHHHH-CCCEEEEeeCCcCc
Confidence            4556666    678877764  789999 99999999976543

>d2g0ta1 c.37.1.10 (A:1-338) Hypothetical protein TM0796 {Thermotoga maritima [TaxId: 2336]}

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: Hypothetical protein TM0796
species: Thermotoga maritima [TaxId: 2336]

Probab=88.83  E-value=1  Score=36.41  Aligned_cols=114  Identities=18%  Similarity=0.210  Sum_probs=71.1

Q ss_pred             CCCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccc
Q 022525           29 GVKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMG  108 (295)
Q Consensus        29 ~~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (295)
                      ...++|.+++.--.+||=|++..|...+.+ +|.++-.+-...++    .+.+-+  .+       .+     ++.++  
T Consensus       155 ~~~~rvl~vGTDca~GK~tTal~l~~~l~~-~G~~a~fiaTGQTG----ili~g~--~G-------v~-----~Dav~--  213 (338)
T d2g0ta1         155 KKIKVVGVFGTDCVVGKRTTAVQLWERALE-KGIKAGFLATGQTG----ILIGAD--AG-------YV-----IDAVP--  213 (338)
T ss_dssp             CCSEEEEEEESSSSSSHHHHHHHHHHHHHH-TTCCEEEEECSHHH----HHTTCS--EE-------CC-----GGGSB--
T ss_pred             cCCcEEEEeccCccccHHHHHHHHHHHHHh-CCCCeeEEEcCCee----Eeeccc--cc-------ee-----cCcch--
Confidence            457999999999999999999999999999 99999988544332    122111  00       00     11111  


Q ss_pred             cccCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccch---hhhhhc--cCceEEEeeCCCc
Q 022525          109 FLVPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQL---TTTQTL--QLSGALIVSTPQD  175 (295)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~---~~~~l~--~ad~viiv~~~~~  175 (295)
                                  ..+..-.++.++-....++.|+|||...+++....+   +...|.  ..|.+|+.-.|..
T Consensus       214 ------------~DfvaGavE~~v~~~~~~~~d~iiIEGQgSL~hP~~s~vtl~LL~Gs~Pd~lVL~H~p~r  273 (338)
T d2g0ta1         214 ------------ADFVSGVVEKAVLKLEKTGKEIVFVEGQGALRHPAYGQVTLGLLYGSNPDVVFLVHDPSR  273 (338)
T ss_dssp             ------------GGGHHHHHHHHHHHHHHTTCSEEEEECCSCTTCTTTHHHHHHHHHHHCCSEEEEECCTTC
T ss_pred             ------------hhhhHHHHHHHHhhhhcCCCCEEEEcccccccccccccccHHHHhcCCCCEEEEeecCCc
Confidence                        122344555544332216789999999988765432   222232  3478888766553

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=88.65  E-value=0.15  Score=39.24  Aligned_cols=28  Identities=25%  Similarity=0.294  Sum_probs=19.7

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           37 ASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      .++..|+||||+|..+|..    .+.....++
T Consensus        40 l~GPpG~GKTtla~~la~~----~~~~~~~~~   67 (239)
T d1ixsb2          40 LFGPPGLGKTTLAHVIAHE----LGVNLRVTS   67 (239)
T ss_dssp             EECCTTSCHHHHHHHHHHH----HTCCEEEEE
T ss_pred             EECCCCCCHHHHHHHHHHH----hCCCeEecc
Confidence            4699999999999877654    344544443

>d1j6ua3 c.72.2.1 (A:89-295) UDP-N-acetylmuramate-alanine ligase MurC {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Thermotoga maritima [TaxId: 2336]

Probab=88.54  E-value=0.28  Score=36.77  Aligned_cols=33  Identities=30%  Similarity=0.339  Sum_probs=28.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      .++|||+   |-.||||++.-|+..|.. .|.++-.+
T Consensus        14 ~~~iAIT---GTnGKTTt~~~l~~iL~~-~g~~~~~~   46 (207)
T d1j6ua3          14 KEEFAVT---GTDGKTTTTAMVAHVLKH-LRKSPTVF   46 (207)
T ss_dssp             CCEEEEE---CSSSHHHHHHHHHHHHHH-TTCCCEEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHh-CCCCCeEE
Confidence            5899997   568999999999999999 99875443

>d1gg4a4 c.72.2.1 (A:99-312) UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF
species: Escherichia coli [TaxId: 562]

Probab=88.44  E-value=0.2  Score=37.53  Aligned_cols=32  Identities=25%  Similarity=0.363  Sum_probs=28.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGL   66 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vll   66 (295)
                      +|+|+|+   |--||||++.-+++.|.. .|.+|.+
T Consensus         2 ~kvI~VT---GTnGKTTt~~mi~~iL~~-~g~~~~~   33 (214)
T d1gg4a4           2 ARVVALT---GSSGKTSVKEMTAAILSQ-CGNTLYT   33 (214)
T ss_dssp             CEEEEEE---CSSCHHHHHHHHHHHHTT-TSCEEEC
T ss_pred             CCEEEEe---CCCcHHHHHHHHHHHHHh-CCCCEEE
Confidence            5899998   557899999999999999 9988864

>d1p3da3 c.72.2.1 (A:107-321) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=88.30  E-value=0.29  Score=36.88  Aligned_cols=33  Identities=30%  Similarity=0.437  Sum_probs=28.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      .++|+|+   |-.||||++.-|++.|.. .|+++..+
T Consensus        12 ~~~I~IT---GTnGKTTt~~~l~~iL~~-~~~~~~~~   44 (215)
T d1p3da3          12 RHGIAVA---GTHGKTTTTAMISMIYTQ-AKLDPTFV   44 (215)
T ss_dssp             SEEEEEE---SSSCHHHHHHHHHHHHHH-TTCCCEEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHh-CCCCceEe
Confidence            3789997   678999999999999999 99988765

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.17  E-value=0.12  Score=39.52  Aligned_cols=28  Identities=25%  Similarity=0.262  Sum_probs=23.2

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      .++.|+|- +--|+||||.+..|+..|..
T Consensus         2 kGk~I~iE-G~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           2 RGKLILIE-GLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             CCCEEEEE-ESTTSSHHHHHHHHHHHTTT
T ss_pred             CeEEEEEE-CCCCCcHHHHHHHHHHHHHh
Confidence            37888885 67789999999999887766

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.08  E-value=0.15  Score=39.59  Aligned_cols=35  Identities=23%  Similarity=0.205  Sum_probs=25.2

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +.+.+ .+..|+||||++..+|..    .+..+..+++..
T Consensus        53 ~~lll-~GPpG~GKTt~a~~la~~----~~~~~~~~~~~~   87 (253)
T d1sxja2          53 RAAML-YGPPGIGKTTAAHLVAQE----LGYDILEQNASD   87 (253)
T ss_dssp             SEEEE-ECSTTSSHHHHHHHHHHH----TTCEEEEECTTS
T ss_pred             ceEEE-ECCCCCCHHHHHHHHHHH----HHhhhhcccccc
Confidence            44555 477999999999977643    667887776543

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=88.07  E-value=1.5  Score=36.53  Aligned_cols=116  Identities=16%  Similarity=0.118  Sum_probs=66.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCCcccccccCCCccccccCcccccccCCceeeccccc
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGPSVPMMMKIDQKPEVTKDMKMVPIENYGVKCMSMGFL  110 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (295)
                      ..-+.++++.-|.||||+...+-..+.. .+++++-|. ||-...+.   |...                 ..+..    
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~~~~~-~~~~i~tiE-dPiE~~~~---~~~q-----------------~~v~~----  210 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQELNS-SERNILTVE-DPIEFDID---GIGQ-----------------TQVNP----  210 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCC-TTSCEEEEE-SSCCSCCS---SSEE-----------------EECBG----
T ss_pred             hhceEEEEcCCCCCccHHHHHHhhhhcC-CCceEEEec-cCcccccC---CCCe-----------------eeecC----
Confidence            4567777899999999999998887766 678888886 55432111   1000                 00000    


Q ss_pred             cCCCCCCccCCchHHHHHHHHHHhccCCCccEEEEcCCCCCCccchhhhhh--ccCceEEEeeCCCcchHHHHHHHHHH
Q 022525          111 VPSSSPVVWRGPMVMSALRKMSREVDWGNLDILVIDMPPGTGDAQLTTTQT--LQLSGALIVSTPQDVALIDARKGITM  187 (295)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~yD~iiiD~~~~~~~~~~~~~~l--~~ad~viiv~~~~~~s~~~~~~~~~~  187 (295)
                              .........++.++   + .+.|+|+|.=--..   .....++  ..+...++.+--.........++++.
T Consensus       211 --------~~~~~~~~~l~~~l---R-~dPDvi~igEiRd~---~ta~~a~~aa~tGhlV~tTlHa~~a~~~~~Rl~~~  274 (401)
T d1p9ra_         211 --------RVDMTFARGLRAIL---R-QDPDVVMVGEIRDL---ETAQIAVQASLTGHLVMSTLHTNTAVGAVTRLRDM  274 (401)
T ss_dssp             --------GGTBCHHHHHHHHG---G-GCCSEEEESCCCSH---HHHHHHHHHHHTTCEEEEEECCSSSHHHHHHHHHH
T ss_pred             --------CcCCCHHHHHHHHH---h-hcCCEEEecCcCCh---HHHHHHHHHHhcCCeEEEEeccCchHhhhhhhhhc
Confidence                    00111233444444   4 89999999754222   2222222  23456777766666667666776654

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.04  E-value=0.14  Score=39.64  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHH
Q 022525           36 VASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +..+..|+||||++..+|..+-.
T Consensus        37 ll~Gp~G~GKTt~~~~la~~l~~   59 (252)
T d1sxje2          37 LLYGPNGTGKKTRCMALLESIFG   59 (252)
T ss_dssp             EEECSTTSSHHHHHHTHHHHHSC
T ss_pred             EEECCCCCCHHHHHHHHHHhhcC
Confidence            35689999999999999988754

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=87.97  E-value=0.37  Score=35.72  Aligned_cols=31  Identities=29%  Similarity=0.187  Sum_probs=24.2

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           37 ASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ....-|.|||+++..++.......+.++++|
T Consensus        28 v~~pTGsGKT~i~~~~~~~~~~~~~~~il~i   58 (200)
T d1wp9a1          28 IVLPTGLGKTLIAMMIAEYRLTKYGGKVLML   58 (200)
T ss_dssp             EECCTTSCHHHHHHHHHHHHHHHSCSCEEEE
T ss_pred             EEeCCCCcHHHHHHHHHHHHHHhcCCcEEEE
Confidence            3478999999998888766554378888888

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {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: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=87.86  E-value=0.3  Score=41.13  Aligned_cols=37  Identities=24%  Similarity=0.239  Sum_probs=30.7

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +-+.|+ +.-|+|||++...+...+.. .|..++++|..
T Consensus        51 ~H~~I~-G~tGsGKT~~l~~li~~~~~-~g~~~iiiD~k   87 (433)
T d1e9ra_          51 RHLLVN-GATGTGKSVLLRELAYTGLL-RGDRMVIVDPN   87 (433)
T ss_dssp             GCEEEE-ECTTSSHHHHHHHHHHHHHH-TTCEEEEEEET
T ss_pred             ceEEEE-eCCCCcHHHHHHHHHHHHHh-CCCCEEEEeCC
Confidence            334443 78999999999999988888 99999999865

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.67  E-value=0.64  Score=33.31  Aligned_cols=89  Identities=10%  Similarity=-0.003  Sum_probs=54.8

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhc-----CCCCeeeEEeccccCCCCCCC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSK-----VQVPILGLVENMSCFICPHCS  211 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-----~~~~~~~~ViN~~~~~~~~~~  211 (295)
                      ..+.+.+.|+++..............+|.+++|.+.+. .++..+...+..+.+     .+.|+ .+|.|+.|.....  
T Consensus        48 ~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~pi-ilVgnK~Dl~~~~--  124 (171)
T d2erxa1          48 SICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPI-MLVGNKCDESPSR--  124 (171)
T ss_dssp             EEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCE-EEEEECGGGGGGC--
T ss_pred             ccceeccccccccccccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcE-EEEeecccccccc--
Confidence            45778899998655433444445567899999987644 566666665554432     23444 4888999853211  


Q ss_pred             CCccccCCchhhHHHHHhCCcE
Q 022525          212 EPSFIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~g~~~  233 (295)
                          .......+++++.++.++
T Consensus       125 ----~v~~~e~~~~~~~~~~~~  142 (171)
T d2erxa1         125 ----EVQSSEAEALARTWKCAF  142 (171)
T ss_dssp             ----CSCHHHHHHHHHHHTCEE
T ss_pred             ----cccHHHHHHHHHHcCCeE
Confidence                122345677778777654

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=87.43  E-value=0.32  Score=37.87  Aligned_cols=34  Identities=21%  Similarity=0.227  Sum_probs=26.0

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +-|.+ .+..|+|||+++..+|.   + .|.+++.||+.
T Consensus        43 ~giLl-~GppGtGKT~la~aia~---~-~~~~~~~i~~~   76 (247)
T d1ixza_          43 KGVLL-VGPPGVGKTHLARAVAG---E-ARVPFITASGS   76 (247)
T ss_dssp             SEEEE-ECCTTSSHHHHHHHHHH---H-TTCCEEEEEHH
T ss_pred             ceEEE-ecCCCCChhHHHHHHHH---H-cCCCEEEEEhH
Confidence            44444 58899999999998885   4 67788888763

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=87.41  E-value=0.34  Score=40.05  Aligned_cols=36  Identities=36%  Similarity=0.439  Sum_probs=26.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHh---CCCeEEEE
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASK---CQLKVGLL   67 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~---~g~~Vlli   67 (295)
                      +-+++..+..|+||||+.+.+-..+.+.   .|.+|++.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~  201 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA  201 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEe
Confidence            4467778999999999998876666541   45677776

>d2gdza1 c.2.1.2 (A:3-256) 15-hydroxyprostaglandin dehydrogenase, PGDH {Human (Homo sapiens) [TaxId: 9606]}

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: 15-hydroxyprostaglandin dehydrogenase, PGDH
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.28  E-value=0.22  Score=38.94  Aligned_cols=36  Identities=31%  Similarity=0.374  Sum_probs=31.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|++.|+++.+|.|+.     +|..|++ .|.+|++.|.+..
T Consensus         3 GKvalITGas~GIG~a-----ia~~la~-~Ga~V~i~~r~~~   38 (254)
T d2gdza1           3 GKVALVTGAAQGIGRA-----FAEALLL-KGAKVALVDWNLE   38 (254)
T ss_dssp             TCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESCHH
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCHH
Confidence            7999999999999976     6788999 9999999987643

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=87.01  E-value=0.44  Score=38.51  Aligned_cols=52  Identities=23%  Similarity=0.187  Sum_probs=33.3

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCC--CcccccccCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYGP--SVPMMMKIDQ   84 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~--~~~~~~g~~~   84 (295)
                      ..+.+..+..|||||.+|..||..|.. .+.+.+-+|+-....  ..+.++|..+
T Consensus        53 ~~~~lf~Gp~G~GKt~lak~la~~l~~-~~~~~~~~~~~~~~~~~~~~~L~g~~~  106 (315)
T d1qvra3          53 IGSFLFLGPTGVGKTELAKTLAATLFD-TEEAMIRIDMTEYMEKHAVSRLIGAPP  106 (315)
T ss_dssp             SEEEEEBSCSSSSHHHHHHHHHHHHHS-SGGGEEEECTTTCCSSGGGGGC-----
T ss_pred             ceEEEEECCCcchHHHHHHHHHHHhcC-CCcceEEEeccccccchhhhhhcCCCC
Confidence            433445688999999999999999976 666777787644332  2334555543

>d2o23a1 c.2.1.2 (A:6-253) Type II 3-hydroxyacyl-CoA dehydrogenase {Human (Homo sapiens) [TaxId: 9606]}

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: Type II 3-hydroxyacyl-CoA dehydrogenase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.97  E-value=0.27  Score=38.10  Aligned_cols=37  Identities=24%  Similarity=0.206  Sum_probs=32.1

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++|++.|+++.+|.|+.     +|..|++ .|.+|+++|.+..
T Consensus         4 kGKvalITGas~GIG~a-----ia~~la~-~G~~V~~~~r~~~   40 (248)
T d2o23a1           4 KGLVAVITGGASGLGLA-----TAERLVG-QGASAVLLDLPNS   40 (248)
T ss_dssp             TTCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEECTTS
T ss_pred             CCCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEeCChH
Confidence            37999999999999975     7888999 9999999987753

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.77  E-value=2.7  Score=29.81  Aligned_cols=67  Identities=15%  Similarity=0.031  Sum_probs=42.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCcc-hHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQDV-ALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+|+..............+|.++++.+.+.. ++..+...+..+.+   .+.++ .+|.|+.+.
T Consensus        52 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ivv~nK~D~  122 (174)
T d2bmea1          52 KYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVI-ILCGNKKDL  122 (174)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEE-EEEEECGGG
T ss_pred             cceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEE-EEEEecccc
Confidence            356788999986444323333445578888888877653 45555555555443   23444 599999984

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.63  E-value=0.24  Score=37.71  Aligned_cols=23  Identities=39%  Similarity=0.537  Sum_probs=19.7

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHH
Q 022525           36 VASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +..+..|+||||+|..+|..+..
T Consensus        40 ll~Gp~G~GKTt~a~~la~~l~~   62 (224)
T d1sxjb2          40 IISGMPGIGKTTSVHCLAHELLG   62 (224)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHG
T ss_pred             EEECCCCCCchhhHHHHHHHHhc
Confidence            34577999999999999998875

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.61  E-value=0.24  Score=38.09  Aligned_cols=29  Identities=21%  Similarity=0.323  Sum_probs=25.5

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ...-|.|||+++...+..++. .|.+|++|
T Consensus        64 ~apTGsGKT~~~~~~~~~~~~-~~~rvliv   92 (237)
T d1gkub1          64 TAPTGVGKTSFGLAMSLFLAL-KGKRCYVI   92 (237)
T ss_dssp             CCCBTSCSHHHHHHHHHHHHT-TSCCEEEE
T ss_pred             EecCCChHHHHHHHHHHHHHH-hcCeEEEE
Confidence            378999999998888888888 89999988

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=86.44  E-value=0.25  Score=36.31  Aligned_cols=24  Identities=38%  Similarity=0.434  Sum_probs=17.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVA   55 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~   55 (295)
                      +++|.+ ++..|+||||++..|...
T Consensus         2 G~iivl-~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           2 GRVVVL-SGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CCEEEE-ECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEE-ECCCCCCHHHHHHHHHhh
Confidence            466665 588999999998765433

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=86.39  E-value=0.47  Score=38.33  Aligned_cols=47  Identities=26%  Similarity=0.369  Sum_probs=32.0

Q ss_pred             EEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC--CCcccccccCC
Q 022525           33 VIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG--PSVPMMMKIDQ   84 (295)
Q Consensus        33 vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~--~~~~~~~g~~~   84 (295)
                      ++. ..+..|||||.+|..||..+.    .+.+-+|+-...  ...+.+.|..+
T Consensus        54 ~~l-f~Gp~GvGKT~lak~la~~l~----~~~i~~d~s~~~~~~~~~~l~g~~~  102 (315)
T d1r6bx3          54 SFL-FAGPTGVGKTEVTVQLSKALG----IELLRFDMSEYMERHTVSRLIGAPP  102 (315)
T ss_dssp             EEE-EECSTTSSHHHHHHHHHHHHT----CEEEEEEGGGCSSSSCCSSSCCCCS
T ss_pred             EEE-EECCCcchhHHHHHHHHhhcc----CCeeEeccccccchhhhhhhcccCC
Confidence            444 458899999999999998764    477788865433  22345555544

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=86.03  E-value=0.39  Score=33.22  Aligned_cols=32  Identities=34%  Similarity=0.252  Sum_probs=24.9

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLL   67 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~Vlli   67 (295)
                      ..+++....-|.|||+++.   ..+.+ .|.+|+++
T Consensus         8 ~~~~ll~apTGsGKT~~~~---~~~~~-~~~~vli~   39 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVP---AAYAA-QGYKVLVL   39 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHH---HHHHT-TTCCEEEE
T ss_pred             CCEEEEEeCCCCCHHHHHH---HHHHH-cCCcEEEE
Confidence            5667778999999998764   34567 89999888

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.01  E-value=0.091  Score=40.46  Aligned_cols=27  Identities=26%  Similarity=0.196  Sum_probs=23.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +|.|+|- +--|+||||++..|+..|..
T Consensus         2 ~k~I~ie-G~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           2 IKKISIE-GNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             CEEEEEE-CSTTSSHHHHHTTTGGGCTT
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHHhc
Confidence            6888885 78899999999998887755

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=85.61  E-value=0.31  Score=37.82  Aligned_cols=37  Identities=22%  Similarity=0.107  Sum_probs=26.6

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      +.|.| .+.+|+|||+++..++.   + .+.+...+++....
T Consensus        30 ~~i~i-~G~~G~GKTsLl~~~~~---~-~~~~~~~i~~~~~~   66 (283)
T d2fnaa2          30 PITLV-LGLRRTGKSSIIKIGIN---E-LNLPYIYLDLRKFE   66 (283)
T ss_dssp             SEEEE-EESTTSSHHHHHHHHHH---H-HTCCEEEEEGGGGT
T ss_pred             CEEEE-EcCCCCcHHHHHHHHHH---H-CCCCeEEEEecccc
Confidence            55655 48999999999987643   3 56678888875443

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=85.50  E-value=0.4  Score=38.39  Aligned_cols=30  Identities=13%  Similarity=0.141  Sum_probs=21.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHHhCC----CeEEEEEe
Q 022525           39 GKGGVGKSTTAVNLAVALASKCQ----LKVGLLDA   69 (295)
Q Consensus        39 ~kGGvGKTt~a~~LA~~la~~~g----~~VlliD~   69 (295)
                      +-.|+||||+.++-+..+.. .+    .+++++-.
T Consensus        31 g~aGSGKTt~l~~ri~~ll~-~~~~~p~~il~lt~   64 (318)
T d1pjra1          31 AGAGSGKTRVLTHRIAYLMA-EKHVAPWNILAITF   64 (318)
T ss_dssp             ECTTSCHHHHHHHHHHHHHH-TTCCCGGGEEEEES
T ss_pred             ecCCccHHHHHHHHHHHHHH-cCCCCHHHeEeEec
Confidence            55799999999986655555 33    47888743

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=85.13  E-value=0.14  Score=41.84  Aligned_cols=33  Identities=24%  Similarity=0.308  Sum_probs=28.7

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           35 AVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      .++-+-=|+||||++..|+..+.. .|.+|+++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~-~g~~v~~~~   40 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI-TPNRILLIG   40 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT-SGGGEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh-cCCceEEEe
Confidence            444678899999999999999998 899999885

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=85.00  E-value=0.33  Score=37.02  Aligned_cols=24  Identities=42%  Similarity=0.537  Sum_probs=20.1

Q ss_pred             EEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           35 AVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        35 ~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      .+..+..|+||||++..+|..+.-
T Consensus        48 lll~Gp~G~GKTtla~~iak~l~~   71 (231)
T d1iqpa2          48 LLFAGPPGVGKTTAALALARELFG   71 (231)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHh
Confidence            345799999999999999988763

>d2d1ya1 c.2.1.2 (A:2-249) Hypothetical protein TTHA0369 {Thermus thermophilus [TaxId: 274]}

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: Hypothetical protein TTHA0369
species: Thermus thermophilus [TaxId: 274]

Probab=84.91  E-value=0.38  Score=37.37  Aligned_cols=35  Identities=29%  Similarity=0.368  Sum_probs=31.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+.     +|..|++ .|.+|++.|.+.
T Consensus         5 GK~alITGas~GIG~a-----ia~~la~-~G~~V~~~~~~~   39 (248)
T d2d1ya1           5 GKGVLVTGGARGIGRA-----IAQAFAR-EGALVALCDLRP   39 (248)
T ss_dssp             TCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESST
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCH
Confidence            6999999999999975     6788999 999999998774

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.67  E-value=0.33  Score=36.95  Aligned_cols=34  Identities=26%  Similarity=0.342  Sum_probs=24.8

Q ss_pred             EeeCCCCCcHHHHHHHHHHHHHHh--CCCeEEEEEe
Q 022525           36 VASGKGGVGKSTTAVNLAVALASK--CQLKVGLLDA   69 (295)
Q Consensus        36 i~s~kGGvGKTt~a~~LA~~la~~--~g~~VlliD~   69 (295)
                      +..+..|+||||++..+|..+...  .+....-++.
T Consensus        37 ll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~   72 (237)
T d1sxjd2          37 LFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   72 (237)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             EEECCCCCChHHHHHHHHHHHcCCcccccchhheec
Confidence            456999999999999999988641  2445555544

>d1xg5a_ c.2.1.2 (A:) Putative dehydrogenase ARPG836 (MGC4172) {Human (Homo sapiens) [TaxId: 9606]}

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: Putative dehydrogenase ARPG836 (MGC4172)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.43  E-value=0.39  Score=37.55  Aligned_cols=35  Identities=31%  Similarity=0.350  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .|++.|+++.+|.|+     .+|..|++ +|.+|++.|-+.
T Consensus        10 ~Kv~lITGas~GIG~-----aiA~~la~-~G~~Vv~~~r~~   44 (257)
T d1xg5a_          10 DRLALVTGASGGIGA-----AVARALVQ-QGLKVVGCARTV   44 (257)
T ss_dssp             TCEEEEESTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            699999999999997     57888999 999999998764

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=84.43  E-value=0.53  Score=39.22  Aligned_cols=35  Identities=23%  Similarity=0.366  Sum_probs=26.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhC-------CCeEEEEEe
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKC-------QLKVGLLDA   69 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~-------g~~VlliD~   69 (295)
                      .+|-|  +..|||||+++-.||..+.. .       +++++-+|+
T Consensus        45 n~llv--G~~GvGKtaiv~~la~~i~~-~~vp~~l~~~~i~~ld~   86 (387)
T d1qvra2          45 NPVLI--GEPGVGKTAIVEGLAQRIVK-GDVPEGLKGKRIVSLQM   86 (387)
T ss_dssp             CCEEE--ECTTSCHHHHHHHHHHHHHH-TCSCTTSTTCEEEEECC
T ss_pred             CCeEE--CCCCCCHHHHHHHHHHHHHh-CCCCHHHcCceEEEeeH
Confidence            44555  77799999999999999987 3       455655544

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {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: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=84.42  E-value=0.18  Score=39.26  Aligned_cols=27  Identities=30%  Similarity=0.433  Sum_probs=21.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +..|+|+ ++.|+||||+...|+-.+.-
T Consensus        29 Ge~vaIv-G~sGsGKSTLl~ll~gl~~p   55 (241)
T d2pmka1          29 GEVIGIV-GRSGSGKSTLTKLIQRFYIP   55 (241)
T ss_dssp             TCEEEEE-CSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhcCCC
Confidence            6889997 66799999999877766553

>d1dhra_ c.2.1.2 (A:) Dihydropteridin reductase (pteridine reductase) {Rat (Rattus norvegicus) [TaxId: 10116]}

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: Dihydropteridin reductase (pteridine reductase)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=84.22  E-value=0.41  Score=36.80  Aligned_cols=36  Identities=19%  Similarity=0.238  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|+|.|+++.+|.|+     .+|..|++ +|.+|.++|.+..
T Consensus         2 gK~vlITGas~GIG~-----a~a~~l~~-~G~~V~~~~~~~~   37 (236)
T d1dhra_           2 ARRVLVYGGRGALGS-----RCVQAFRA-RNWWVASIDVVEN   37 (236)
T ss_dssp             CCEEEEETTTSHHHH-----HHHHHHHT-TTCEEEEEESSCC
T ss_pred             CCEEEEECCCCHHHH-----HHHHHHHH-CCCEEEEEeCCcc
Confidence            699999999999996     56778999 9999999987653

>d1pr9a_ c.2.1.2 (A:) Carbonyl reductase {Human (Homo sapiens) [TaxId: 9606]}

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: Carbonyl reductase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.05  E-value=0.42  Score=37.04  Aligned_cols=35  Identities=17%  Similarity=0.243  Sum_probs=30.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+|++.|+++.+|.|+.     +|..|++ .|.+|+++|-+
T Consensus         6 ~GK~~lITGas~GIG~a-----ia~~la~-~G~~V~~~~r~   40 (244)
T d1pr9a_           6 AGRRVLVTGAGKGIGRG-----TVQALHA-TGARVVAVSRT   40 (244)
T ss_dssp             TTCEEEEESTTSHHHHH-----HHHHHHH-TTCEEEEEESC
T ss_pred             CCCEEEEeCCCCHHHHH-----HHHHHHH-cCCEEEEEECC
Confidence            47999999999999975     7889999 99999999865

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=83.94  E-value=0.52  Score=33.89  Aligned_cols=27  Identities=19%  Similarity=0.354  Sum_probs=21.8

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ..|.+..+.=|+||||++..++..|.-
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhccc
Confidence            445555789999999999999988865

>d1w6ua_ c.2.1.2 (A:) 2,4-dienoyl-CoA reductase, mitochondrial (DECR) {Human (Homo sapiens), [TaxId: 9606]}

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: 2,4-dienoyl-CoA reductase, mitochondrial (DECR)
species: Human (Homo sapiens), [TaxId: 9606]

Probab=83.88  E-value=0.39  Score=38.16  Aligned_cols=36  Identities=19%  Similarity=0.306  Sum_probs=31.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+|++.|+++.+|.|+.     +|..|++ .|.+|+++|.+.
T Consensus        24 ~gK~alITGas~GIG~a-----iA~~la~-~Ga~Vii~~r~~   59 (294)
T d1w6ua_          24 QGKVAFITGGGTGLGKG-----MTTLLSS-LGAQCVIASRKM   59 (294)
T ss_dssp             TTCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESCH
T ss_pred             CCCEEEEeCCCCHHHHH-----HHHHHHH-cCCEEEEEECCH
Confidence            46999999999999975     6778999 999999998764

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=83.80  E-value=0.38  Score=37.35  Aligned_cols=33  Identities=15%  Similarity=0.125  Sum_probs=23.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   68 (295)
                      .+.|-++ +..|+|||+++..+|..    .|.+++-++
T Consensus        40 ~~~vLL~-GppGtGKT~la~alA~~----~~~~~~~i~   72 (246)
T d1d2na_          40 LVSVLLE-GPPHSGKTALAAKIAEE----SNFPFIKIC   72 (246)
T ss_dssp             EEEEEEE-CSTTSSHHHHHHHHHHH----HTCSEEEEE
T ss_pred             CeEEEEE-CcCCCCHHHHHHHHhhc----ccccccccc
Confidence            3556665 66799999999988754    456766554

>d1i0za1 c.2.1.5 (A:1-160) Lactate dehydrogenase {Human (Homo sapiens), heart isoform (H chain) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Human (Homo sapiens), heart isoform (H chain) [TaxId: 9606]

Probab=83.80  E-value=0.32  Score=35.15  Aligned_cols=34  Identities=26%  Similarity=0.379  Sum_probs=25.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCC--eEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQL--KVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~--~VlliD~D~   71 (295)
                      .+-|+|.+. |.||.|     +|+.++. .|.  .++|+|.+.
T Consensus        20 ~~KV~IIGa-G~VG~~-----~A~~l~~-~~l~~ElvLiD~~~   55 (160)
T d1i0za1          20 NNKITVVGV-GQVGMA-----CAISILG-KSLADELALVDVLE   55 (160)
T ss_dssp             SSEEEEECC-SHHHHH-----HHHHHHH-TTCCSEEEEECSCH
T ss_pred             CCeEEEECC-CHHHHH-----HHHHHHh-cCCCcEEEEEEecc
Confidence            467788765 888876     6777777 665  799999764

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.60  E-value=0.34  Score=37.11  Aligned_cols=27  Identities=26%  Similarity=0.283  Sum_probs=22.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +|.|+| -+--|+||||++..|+..|..
T Consensus         2 pk~Ivi-EG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           2 PRRLSI-EGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CEEEEE-EECTTSSHHHHHHHHHHHCTT
T ss_pred             CeEEEE-ECCCCCcHHHHHHHHHHHHhh
Confidence            577887 478899999999988877766

>d2ew8a1 c.2.1.2 (A:3-249) (s)-1-phenylethanol dehydrogenase {Azoarcus sp. ebn1 [TaxId: 76114]}

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: (s)-1-phenylethanol dehydrogenase
species: Azoarcus sp. ebn1 [TaxId: 76114]

Probab=83.53  E-value=0.49  Score=36.69  Aligned_cols=35  Identities=17%  Similarity=0.366  Sum_probs=31.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+.     +|..|++ .|.+|++.|.+.
T Consensus         5 gKvalVTGas~GIG~a-----ia~~la~-~Ga~V~~~~~~~   39 (247)
T d2ew8a1           5 DKLAVITGGANGIGRA-----IAERFAV-EGADIAIADLVP   39 (247)
T ss_dssp             TCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESSC
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCc
Confidence            6999999999999975     7888999 999999998764

>d1h5qa_ c.2.1.2 (A:) Mannitol dehydrogenase {Mushroom (Agaricus bisporus) [TaxId: 5341]}

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: Mannitol dehydrogenase
species: Mushroom (Agaricus bisporus) [TaxId: 5341]

Probab=83.39  E-value=0.46  Score=37.10  Aligned_cols=37  Identities=24%  Similarity=0.406  Sum_probs=32.3

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      ++|++.|+++.+|.|+.     +|..|++ .|.+|+++|-+..
T Consensus         8 ~gK~alITGas~GIG~a-----ia~~la~-~Ga~V~i~~r~~~   44 (260)
T d1h5qa_           8 VNKTIIVTGGNRGIGLA-----FTRAVAA-AGANVAVIYRSAA   44 (260)
T ss_dssp             TTEEEEEETTTSHHHHH-----HHHHHHH-TTEEEEEEESSCT
T ss_pred             CCCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCHH
Confidence            37999999999999965     6789999 9999999988754

>d2vo1a1 c.37.1.10 (A:1-273) CTP synthase PyrG, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

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: CTP synthase PyrG, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.34  E-value=1.2  Score=34.68  Aligned_cols=41  Identities=32%  Similarity=0.439  Sum_probs=34.6

Q ss_pred             eEEEEe-eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVA-SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~-s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |-|.|+ +--.|.||-.+|+.+|..|.. +|.+|.++-+||--
T Consensus         2 KyifVtGGV~S~lGKGi~~aSig~ll~~-~g~~V~~~K~DPYl   43 (273)
T d2vo1a1           2 KYILVTGGVISGIGKGIIASSVGTILKS-CGLHVTSIKIDPYI   43 (273)
T ss_dssp             EEEEEEECSSSSSSHHHHHHHHHHHHHH-TTCCEEEEEEECSS
T ss_pred             eEEEEeCCcccccchHHHHHHHHHHHHh-CCceeEEEecccce
Confidence            444444 456789999999999999999 99999999999864

>d2ae2a_ c.2.1.2 (A:) Tropinone reductase {Jimsonweed (Datura stramonium), II [TaxId: 4076]}

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: Tropinone reductase
species: Jimsonweed (Datura stramonium), II [TaxId: 4076]

Probab=83.19  E-value=0.46  Score=37.13  Aligned_cols=35  Identities=23%  Similarity=0.204  Sum_probs=30.9

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      .+|++.|+++.+|.|+     .+|..|++ .|.+|++.|-+
T Consensus         7 ~GK~alITGas~GIG~-----aia~~la~-~Ga~V~~~~r~   41 (259)
T d2ae2a_           7 EGCTALVTGGSRGIGY-----GIVEELAS-LGASVYTCSRN   41 (259)
T ss_dssp             TTCEEEEESCSSHHHH-----HHHHHHHH-TTCEEEEEESC
T ss_pred             CCCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEECC
Confidence            3799999999999997     57889999 99999999865

>d1zema1 c.2.1.2 (A:3-262) Xylitol dehydrogenase {Gluconobacter oxydans [TaxId: 442]}

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: Xylitol dehydrogenase
species: Gluconobacter oxydans [TaxId: 442]

Probab=83.09  E-value=0.46  Score=37.17  Aligned_cols=35  Identities=29%  Similarity=0.359  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+     .+|..|++ .|.+|++.|.+.
T Consensus         5 gK~alITGas~GIG~-----aia~~la~-~Ga~V~~~~r~~   39 (260)
T d1zema1           5 GKVCLVTGAGGNIGL-----ATALRLAE-EGTAIALLDMNR   39 (260)
T ss_dssp             TCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            699999999999997     46888999 999999998764

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.04  E-value=0.43  Score=36.14  Aligned_cols=33  Identities=27%  Similarity=0.321  Sum_probs=23.1

Q ss_pred             eeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           37 ASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        37 ~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ..+..|+||||++..+|..+-. .......++.+
T Consensus        40 l~Gp~G~GKttl~~~la~~l~~-~~~~~~~~e~~   72 (227)
T d1sxjc2          40 FYGPPGTGKTSTIVALAREIYG-KNYSNMVLELN   72 (227)
T ss_dssp             EECSSSSSHHHHHHHHHHHHHT-TSHHHHEEEEC
T ss_pred             EECCCCCChhHHHHHHHHHhhc-CCCcceeEEec
Confidence            4578999999999999988765 44333333433

>d1luaa1 c.2.1.7 (A:98-288) Methylene-tetrahydromethanopterin dehydrogenase {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Aminoacid dehydrogenase-like, C-terminal domain
domain: Methylene-tetrahydromethanopterin dehydrogenase
species: Methylobacterium extorquens [TaxId: 408]

Probab=82.99  E-value=0.5  Score=34.99  Aligned_cols=36  Identities=28%  Similarity=0.229  Sum_probs=31.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|++.|+++.||+|+     .+|..|++ +|.+|.+++-+..
T Consensus        23 gK~vlItGasgGIG~-----~ia~~la~-~G~~V~~~~r~~~   58 (191)
T d1luaa1          23 GKKAVVLAGTGPVGM-----RSAALLAG-EGAEVVLCGRKLD   58 (191)
T ss_dssp             TCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESSHH
T ss_pred             CCEEEEECCCHHHHH-----HHHHHHHh-hccchhhcccchH
Confidence            699999999999996     67888999 9999999987753

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=82.91  E-value=1.2  Score=32.41  Aligned_cols=28  Identities=32%  Similarity=0.442  Sum_probs=21.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeE
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKV   64 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~V   64 (295)
                      ++-|.|. ++.|+||||+|.    .|.+ +|++.
T Consensus        14 g~gvl~~-G~sG~GKStlal----~l~~-~g~~l   41 (176)
T d1kkma_          14 GLGVLIT-GDSGVGKSETAL----ELVQ-RGHRL   41 (176)
T ss_dssp             TEEEEEE-CCTTSCHHHHHH----HHHH-TTCEE
T ss_pred             CEEEEEE-eCCCCCHHHHHH----HHHH-cCCeE
Confidence            4666665 899999999887    4567 78764

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=82.87  E-value=0.47  Score=32.42  Aligned_cols=36  Identities=19%  Similarity=0.164  Sum_probs=24.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHH-HHHHHHHhCCCeEEEEE
Q 022525           31 KDVIAVASGKGGVGKSTTAVN-LAVALASKCQLKVGLLD   68 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~-LA~~la~~~g~~VlliD   68 (295)
                      ++.. +.+.--|.|||..+.. +...+.+ .+.+++++-
T Consensus         7 ~~~~-il~~~tGsGKT~~~~~~~~~~~~~-~~~~vli~~   43 (140)
T d1yksa1           7 GMTT-VLDFHPGAGKTRRFLPQILAECAR-RRLRTLVLA   43 (140)
T ss_dssp             TCEE-EECCCTTSSTTTTHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CCcE-EEEcCCCCChhHHHHHHHHHHhhh-cCceeeeee
Confidence            3444 4456699999988754 4455556 788888883

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=82.87  E-value=0.21  Score=39.16  Aligned_cols=27  Identities=30%  Similarity=0.389  Sum_probs=21.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      +..++|+ ++.|+||||+...|+-.+.-
T Consensus        41 Ge~iaiv-G~sGsGKSTLl~ll~gl~~p   67 (253)
T d3b60a1          41 GKTVALV-GRSGSGKSTIASLITRFYDI   67 (253)
T ss_dssp             TCEEEEE-ECTTSSHHHHHHHHTTTTCC
T ss_pred             CCEEEEE-CCCCChHHHHHHHHhcccCC
Confidence            6789997 68899999999877655543

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=82.66  E-value=0.41  Score=37.92  Aligned_cols=33  Identities=18%  Similarity=0.270  Sum_probs=23.3

Q ss_pred             eCCCCCcHHHHHHHHHHHHHHhCC---CeEEEEEeC
Q 022525           38 SGKGGVGKSTTAVNLAVALASKCQ---LKVGLLDAD   70 (295)
Q Consensus        38 s~kGGvGKTt~a~~LA~~la~~~g---~~VlliD~D   70 (295)
                      .+-.|+||||+.++.+..+....+   .+|+++-..
T Consensus        20 ~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~t   55 (306)
T d1uaaa1          20 LAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFT   55 (306)
T ss_dssp             CCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESS
T ss_pred             EeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCc
Confidence            477999999998886655544133   479888643

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.56  E-value=0.36  Score=35.32  Aligned_cols=20  Identities=30%  Similarity=0.514  Sum_probs=16.3

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNL   52 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~L   52 (295)
                      .|+|.+  +-|||||||+...+
T Consensus         3 ~Kivll--G~~~vGKTsl~~r~   22 (195)
T d1svsa1           3 VKLLLL--GAGESGKSTIVKQM   22 (195)
T ss_dssp             EEEEEE--CSTTSSHHHHHHHH
T ss_pred             eEEEEE--CCCCCCHHHHHHHH
Confidence            477777  99999999998643

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.41  E-value=0.44  Score=34.92  Aligned_cols=23  Identities=22%  Similarity=0.434  Sum_probs=16.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAV   54 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~   54 (295)
                      .|.|.+ ++..|+||||+...|..
T Consensus         3 ~k~ivl-~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           3 RKTLVL-LGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CCEEEE-ECCTTSSHHHHHHHHHH
T ss_pred             CCcEEE-ECCCCCCHHHHHHHHHH
Confidence            455555 68899999999875443

>d1k2wa_ c.2.1.2 (A:) Sorbitol dehydrogenase {Rhodobacter sphaeroides [TaxId: 1063]}

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: Sorbitol dehydrogenase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=82.17  E-value=0.53  Score=36.66  Aligned_cols=35  Identities=17%  Similarity=0.334  Sum_probs=30.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+     .+|..|++ .|.+|++.|.+.
T Consensus         5 gK~alVTGas~GIG~-----aia~~la~-~Ga~V~~~~r~~   39 (256)
T d1k2wa_           5 GKTALITGSARGIGR-----AFAEAYVR-EGARVAIADINL   39 (256)
T ss_dssp             TEEEEEETCSSHHHH-----HHHHHHHH-TTEEEEEEESCH
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            699999999999997     57888999 999999998653

>d1xkqa_ c.2.1.2 (A:) Hypothetical protein R05D8.7 {Caenorhabditis elegans [TaxId: 6239]}

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: Hypothetical protein R05D8.7
species: Caenorhabditis elegans [TaxId: 6239]

Probab=82.16  E-value=0.42  Score=37.67  Aligned_cols=35  Identities=14%  Similarity=0.326  Sum_probs=31.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+     .+|..|++ .|.+|++.|-+.
T Consensus         5 gK~alVTGas~GIG~-----aia~~la~-~Ga~V~l~~r~~   39 (272)
T d1xkqa_           5 NKTVIITGSSNGIGR-----TTAILFAQ-EGANVTITGRSS   39 (272)
T ss_dssp             TCEEEETTCSSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCcCcHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            699999999999997     47889999 999999998764

>d1jaya_ c.2.1.6 (A:) Coenzyme F420H2:NADP+ oxidoreductase (FNO) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: 6-phosphogluconate dehydrogenase-like, N-terminal domain
domain: Coenzyme F420H2:NADP+ oxidoreductase (FNO)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=82.09  E-value=0.38  Score=35.16  Aligned_cols=33  Identities=21%  Similarity=0.230  Sum_probs=25.1

Q ss_pred             EEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           34 IAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        34 I~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      |+|+++-|+     +-..||..|++ .|++|.+++-|+.
T Consensus         3 i~vigGaG~-----iG~alA~~la~-~G~~V~l~~R~~e   35 (212)
T d1jaya_           3 VALLGGTGN-----LGKGLALRLAT-LGHEIVVGSRREE   35 (212)
T ss_dssp             EEEETTTSH-----HHHHHHHHHHT-TTCEEEEEESSHH
T ss_pred             EEEEeCCcH-----HHHHHHHHHHH-CCCEEEEEECCHH
Confidence            566633344     55788999999 9999999988753

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=81.96  E-value=0.53  Score=33.02  Aligned_cols=67  Identities=15%  Similarity=0.109  Sum_probs=40.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc---CCCCeeeEEecccc
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK---VQVPILGLVENMSC  204 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~  204 (295)
                      ..+.+.+.|+++..............++.++++... +..+...+......+..   .....+.++.|+.+
T Consensus        42 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d  112 (160)
T d1r8sa_          42 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQD  112 (160)
T ss_dssp             SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTT
T ss_pred             eeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeeccc
Confidence            567789999986555434444555567777766644 44455555554444433   23345568888876

>d2bgka1 c.2.1.2 (A:11-278) Rhizome secoisolariciresinol dehydrogenase {Mayapple (Podophyllum peltatum) [TaxId: 35933]}

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: Rhizome secoisolariciresinol dehydrogenase
species: Mayapple (Podophyllum peltatum) [TaxId: 35933]

Probab=81.94  E-value=0.55  Score=36.81  Aligned_cols=35  Identities=26%  Similarity=0.389  Sum_probs=30.8

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+     .+|..|++ .|.+|+++|.+.
T Consensus         6 gKvalITGas~GIG~-----aia~~la~-~Ga~V~i~~r~~   40 (268)
T d2bgka1           6 DKVAIITGGAGGIGE-----TTAKLFVR-YGAKVVIADIAD   40 (268)
T ss_dssp             TCEEEEESTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCCCcHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            699999999999997     47788999 999999998764

>d1ydea1 c.2.1.2 (A:4-253) Retinal dehydrogenase/reductase 3 {Human (Homo sapiens) [TaxId: 9606]}

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: Retinal dehydrogenase/reductase 3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.81  E-value=0.54  Score=36.51  Aligned_cols=34  Identities=26%  Similarity=0.476  Sum_probs=30.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      +|++.|+++.+|.|+     .+|..|++ .|.+|++.|-+
T Consensus         6 GK~alITGas~GIG~-----aia~~la~-~Ga~V~i~~r~   39 (250)
T d1ydea1           6 GKVVVVTGGGRGIGA-----GIVRAFVN-SGARVVICDKD   39 (250)
T ss_dssp             TCEEEEETCSSHHHH-----HHHHHHHH-TTCEEEEEESC
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEECC
Confidence            699999999999997     47889999 99999999865

>d1yb1a_ c.2.1.2 (A:) 17-beta-hydroxysteroid dehydrogenase type XI {Human (Homo sapiens) [TaxId: 9606]}

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: 17-beta-hydroxysteroid dehydrogenase type XI
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.72  E-value=0.67  Score=35.85  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=31.4

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      .+|++.|+++.+|.|+     .+|..|++ .|.+|++.|-+.
T Consensus         6 ~Gkv~lITGas~GIG~-----~ia~~la~-~G~~V~l~~r~~   41 (244)
T d1yb1a_           6 TGEIVLITGAGHGIGR-----LTAYEFAK-LKSKLVLWDINK   41 (244)
T ss_dssp             TTCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCCEEEEeCCCcHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            4799999999999996     56788999 999999998764

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.72  E-value=0.88  Score=35.85  Aligned_cols=27  Identities=30%  Similarity=0.428  Sum_probs=22.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALAS   58 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~   58 (295)
                      ++.+.|+++. |+|||+++..++...++
T Consensus        68 GQr~~If~~~-g~GKt~l~~~i~~~~~~   94 (276)
T d2jdid3          68 GGKIGLFGGA-GVGKTVLIMELINNVAK   94 (276)
T ss_dssp             TCEEEEEECT-TSSHHHHHHHHHHHHTT
T ss_pred             CCEEEeeCCC-CCCHHHHHHHHHHHHHh
Confidence            5677777655 99999999999988766

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=81.71  E-value=6.9  Score=27.71  Aligned_cols=68  Identities=16%  Similarity=0.074  Sum_probs=39.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc-C--CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK-V--QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~-~--~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|+++..............+|.++++... +..+.......+....+ .  ....+.+|.|+.|.
T Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl  130 (182)
T d1moza_          59 KNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ  130 (182)
T ss_dssp             TTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTS
T ss_pred             CCEEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecc
Confidence            567789999986544323333445567887777754 44566666665544332 2  22345588999884

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.70  E-value=1.9  Score=30.77  Aligned_cols=67  Identities=18%  Similarity=0.116  Sum_probs=44.4

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCC-CcchHHHHHHHHHHHhc--CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTP-QDVALIDARKGITMFSK--VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~-~~~s~~~~~~~~~~l~~--~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.|.|+++......+....+..+|.++++.+. +..++..+...+..+.+  .+.++ .+|.|+.+.
T Consensus        50 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~pi-ilvgnK~Dl  119 (170)
T d1i2ma_          50 GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPI-VLCGNKVDI  119 (170)
T ss_dssp             CCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCCE-EEEEECCCC
T ss_pred             ccccccccccccccccceecchhcccccchhhccccccccccchhHHHHHHHhhccCCCce-eeecchhhh
Confidence            568899999996433223333445578888888775 44567777666665543  34555 599999985

>d1gz6a_ c.2.1.2 (A:) (3R)-hydroxyacyl-CoA dehydrogenase domain of estradiol 17 beta-Dehydrogenase 4 {Rat (Rattus norvegicus) [TaxId: 10116]}

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: (3R)-hydroxyacyl-CoA dehydrogenase domain of estradiol 17 beta-Dehydrogenase 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.66  E-value=0.48  Score=38.02  Aligned_cols=38  Identities=26%  Similarity=0.231  Sum_probs=32.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      .+|++.|+++.+|.|+.     +|..|++ +|.+|++.|.+...
T Consensus         6 ~gKvalITGas~GIG~a-----iA~~la~-~Ga~Vvi~d~~~~~   43 (302)
T d1gz6a_           6 DGRVVLVTGAGGGLGRA-----YALAFAE-RGALVVVNDLGGDF   43 (302)
T ss_dssp             TTCEEEETTTTSHHHHH-----HHHHHHH-TTCEEEEECCCBCT
T ss_pred             CCCEEEEeCCCCHHHHH-----HHHHHHH-cCCEEEEEeCCchh
Confidence            47999999999999974     6788999 99999999887543

>d1ulsa_ c.2.1.2 (A:) beta-keto acyl carrier protein reductase {Thermus thermophilus [TaxId: 274]}

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: beta-keto acyl carrier protein reductase
species: Thermus thermophilus [TaxId: 274]

Probab=81.57  E-value=0.68  Score=35.71  Aligned_cols=35  Identities=11%  Similarity=0.221  Sum_probs=30.6

Q ss_pred             CCeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeC
Q 022525           30 VKDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDAD   70 (295)
Q Consensus        30 ~~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   70 (295)
                      ..|++.|+++.+|.|+.     +|..|++ .|.+|++.|.+
T Consensus         4 ~gK~~lITGas~GIG~a-----ia~~l~~-~G~~V~~~~r~   38 (242)
T d1ulsa_           4 KDKAVLITGAAHGIGRA-----TLELFAK-EGARLVACDIE   38 (242)
T ss_dssp             TTCEEEEESTTSHHHHH-----HHHHHHH-TTCEEEEEESC
T ss_pred             CCCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECC
Confidence            36999999999999975     6788999 99999999865

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.56  E-value=0.52  Score=33.08  Aligned_cols=68  Identities=13%  Similarity=0.146  Sum_probs=34.6

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~  205 (295)
                      ....+.+.|++...............++.++++..... ................   ...++.++.|+.+.
T Consensus        42 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~  113 (166)
T d2qtvb1          42 GNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDA  113 (166)
T ss_dssp             TTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTS
T ss_pred             CCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccc
Confidence            34557777887654433333444445666665555433 3444443333333221   22334578888774

>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=81.44  E-value=4.6  Score=27.17  Aligned_cols=24  Identities=13%  Similarity=-0.017  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           48 TAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        48 ~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +...+|..|.+ .|.+|++||.|+.
T Consensus        11 ~G~~la~~L~~-~g~~vvvid~d~~   34 (134)
T d2hmva1          11 FGGSIVKELHR-MGHEVLAVDINEE   34 (134)
T ss_dssp             HHHHHHHHHHH-TTCCCEEEESCHH
T ss_pred             HHHHHHHHHHH-CCCeEEEecCcHH
Confidence            35778999999 9999999998854

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=81.44  E-value=0.27  Score=36.36  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=18.0

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVA   55 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~   55 (295)
                      +.+|+| -+--|+||||++-.|+..
T Consensus         9 p~~I~i-eG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           9 PFTVLI-EGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CEEEEE-ECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEE-ECCCCCCHHHHHHHHHHH
Confidence            456666 488899999988866543

>d1uaya_ c.2.1.2 (A:) Type II 3-hydroxyacyl-CoA dehydrogenase {Thermus thermophilus [TaxId: 274]}

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: Type II 3-hydroxyacyl-CoA dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=81.43  E-value=0.47  Score=36.21  Aligned_cols=36  Identities=31%  Similarity=0.437  Sum_probs=31.1

Q ss_pred             eEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |++.|+++.+|.|+.     +|..|++ .|.+|++.|.+...
T Consensus         2 K~alITGas~GIG~a-----iA~~la~-~Ga~V~i~~~~~~~   37 (241)
T d1uaya_           2 RSALVTGGASGLGRA-----AALALKA-RGYRVVVLDLRREG   37 (241)
T ss_dssp             CEEEEETTTSHHHHH-----HHHHHHH-HTCEEEEEESSCCS
T ss_pred             CEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCccc
Confidence            788899999999974     7888999 99999999987654

>d1iy8a_ c.2.1.2 (A:) Levodione reductase {Corynebacterium aquaticum [TaxId: 144185]}

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: Levodione reductase
species: Corynebacterium aquaticum [TaxId: 144185]

Probab=81.43  E-value=0.57  Score=36.54  Aligned_cols=36  Identities=31%  Similarity=0.494  Sum_probs=31.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVY   72 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   72 (295)
                      +|++.|+++.+|.|+.     +|..|++ .|.+|++.|.+..
T Consensus         4 gK~alITGas~GIG~a-----ia~~la~-~Ga~V~i~~r~~~   39 (258)
T d1iy8a_           4 DRVVLITGGGSGLGRA-----TAVRLAA-EGAKLSLVDVSSE   39 (258)
T ss_dssp             TCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESCHH
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCHH
Confidence            6999999999999975     5778999 9999999987643

>d1q7ba_ c.2.1.2 (A:) beta-keto acyl carrier protein reductase {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: Tyrosine-dependent oxidoreductases
domain: beta-keto acyl carrier protein reductase
species: Escherichia coli [TaxId: 562]

Probab=81.37  E-value=0.52  Score=36.44  Aligned_cols=35  Identities=23%  Similarity=0.258  Sum_probs=30.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+.     +|..|++ .|.+|++.|-+.
T Consensus         4 gK~alITGas~GIG~a-----~a~~l~~-~G~~Vv~~~r~~   38 (243)
T d1q7ba_           4 GKIALVTGASRGIGRA-----IAETLAA-RGAKVIGTATSE   38 (243)
T ss_dssp             TCEEEESSCSSHHHHH-----HHHHHHH-TTCEEEEEESSH
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHH-cCCEEEEEeCCH
Confidence            6999999999999975     6788999 999999998653

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=81.30  E-value=0.33  Score=35.07  Aligned_cols=19  Identities=21%  Similarity=0.282  Sum_probs=14.2

Q ss_pred             CeEEEEeeCCCCCcHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVN   51 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~   51 (295)
                      .|++.+  +..||||||+...
T Consensus        14 ~kI~lv--G~~~vGKTsLl~~   32 (186)
T d1f6ba_          14 GKLVFL--GLDNAGKTTLLHM   32 (186)
T ss_dssp             EEEEEE--EETTSSHHHHHHH
T ss_pred             CEEEEE--CCCCCCHHHHHHH
Confidence            465555  7888999999664

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=81.20  E-value=0.63  Score=37.36  Aligned_cols=36  Identities=28%  Similarity=0.246  Sum_probs=26.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      ++.|.++ +..|||||++|-.||..+.    .....+|+-.
T Consensus        49 ~~~iLl~-GPpG~GKT~lAkalA~~~~----~~~~~i~~s~   84 (309)
T d1ofha_          49 PKNILMI-GPTGVGKTEIARRLAKLAN----APFIKVEATK   84 (309)
T ss_dssp             CCCEEEE-CCTTSSHHHHHHHHHHHHT----CCEEEEEGGG
T ss_pred             CceEEEE-CCCCCCHHHHHHHHhhccc----cchhcccccc
Confidence            3555554 8899999999998887653    4666776643

>d2rhca1 c.2.1.2 (A:5-261) beta-keto acyl carrier protein reductase {Streptomyces coelicolor [TaxId: 1902]}

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: beta-keto acyl carrier protein reductase
species: Streptomyces coelicolor [TaxId: 1902]

Probab=80.82  E-value=0.63  Score=36.18  Aligned_cols=35  Identities=23%  Similarity=0.291  Sum_probs=30.7

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +||..|+++.+|.|+     .+|..|++ .|.+|++.|.+.
T Consensus         2 gKValITGas~GIG~-----aia~~la~-~Ga~V~i~~r~~   36 (257)
T d2rhca1           2 SEVALVTGATSGIGL-----EIARRLGK-EGLRVFVCARGE   36 (257)
T ss_dssp             CCEEEEESCSSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            689999999999997     57888999 999999998763

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=80.75  E-value=0.29  Score=38.33  Aligned_cols=26  Identities=27%  Similarity=0.282  Sum_probs=19.4

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHH
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALA   57 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la   57 (295)
                      +..++|+ ++.|+||||+...|+-.+.
T Consensus        44 Ge~vaiv-G~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          44 GETVAFV-GMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             TCEEEEE-CSTTSSHHHHHTTTTTSSC
T ss_pred             CCEEEEE-CCCCCcHHHHHHHHHhcCC
Confidence            6788887 6779999999775554333

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=80.49  E-value=0.65  Score=32.75  Aligned_cols=68  Identities=13%  Similarity=0.030  Sum_probs=35.3

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHh---cCCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFS---KVQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~---~~~~~~~~~ViN~~~~  205 (295)
                      +.+.+.+.|.+...............++.++++.... ..+............   ......+.+|.|+.+.
T Consensus        47 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl  118 (169)
T d1upta_          47 KNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDM  118 (169)
T ss_dssp             TTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             CceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccc
Confidence            4566777777654443333334444556665555433 334444444333332   2334556688898874

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=80.34  E-value=2.1  Score=29.82  Aligned_cols=37  Identities=16%  Similarity=0.087  Sum_probs=30.1

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDA   69 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~   69 (295)
                      +.+=.| -+.-.+||||--...+..+.. .|++|++|-.
T Consensus         7 G~l~lI-~GpMfSGKTteLi~~~~~~~~-~g~~vl~i~~   43 (141)
T d1xx6a1           7 GWVEVI-VGPMYSGKSEELIRRIRRAKI-AKQKIQVFKP   43 (141)
T ss_dssp             CEEEEE-ECSTTSSHHHHHHHHHHHHHH-TTCCEEEEEE
T ss_pred             eeEEEE-EeccccHHHHHHHHHHHHhhh-cCCcEEEEEe
Confidence            444444 477889999999999999999 9999999943

>d1vl8a_ c.2.1.2 (A:) Gluconate 5-dehydrogenase {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: Tyrosine-dependent oxidoreductases
domain: Gluconate 5-dehydrogenase
species: Thermotoga maritima [TaxId: 2336]

Probab=80.33  E-value=0.66  Score=35.99  Aligned_cols=35  Identities=26%  Similarity=0.341  Sum_probs=30.5

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+     .+|..|++ .|.+|++.|.+.
T Consensus         5 gK~~lITGas~GIG~-----aia~~la~-~Ga~V~i~~r~~   39 (251)
T d1vl8a_           5 GRVALVTGGSRGLGF-----GIAQGLAE-AGCSVVVASRNL   39 (251)
T ss_dssp             TCEEEEETTTSHHHH-----HHHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHH-CCCEEEEEECCH
Confidence            699999999999997     45778999 999999998764

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=80.29  E-value=0.77  Score=33.35  Aligned_cols=27  Identities=30%  Similarity=0.433  Sum_probs=19.9

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCe
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLK   63 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~   63 (295)
                      ++-|.|. ++.|+||||++.    .|.+ +|++
T Consensus        15 g~gvli~-G~sg~GKS~la~----~l~~-~g~~   41 (169)
T d1ko7a2          15 GVGVLIT-GDSGIGKSETAL----ELIK-RGHR   41 (169)
T ss_dssp             TEEEEEE-ESTTSSHHHHHH----HHHH-TTCE
T ss_pred             CEEEEEE-eCCCCCHHHHHH----HHHH-cCCe
Confidence            4566664 889999999876    4566 7765

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.24  E-value=2.9  Score=30.01  Aligned_cols=89  Identities=13%  Similarity=0.129  Sum_probs=48.9

Q ss_pred             CccEEEEcCCCCCCccchhhhhhccCceEEEeeCCCc-chHHHHHHHHHHHhcC---CCCeeeEEeccccCCCCCCCCCc
Q 022525          139 NLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQD-VALIDARKGITMFSKV---QVPILGLVENMSCFICPHCSEPS  214 (295)
Q Consensus       139 ~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~~~ViN~~~~~~~~~~~~~  214 (295)
                      .+.+.+.|+++.-.........+..+|.+|++..... .++..+......+...   ...++.+|.|+.+.....     
T Consensus        63 ~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~-----  137 (186)
T d2f7sa1          63 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR-----  137 (186)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGC-----
T ss_pred             eEEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhh-----
Confidence            4567888987532221223334557899988887654 3455555444443332   223456899999843211     


Q ss_pred             cccCCchhhHHHHHhCCcE
Q 022525          215 FIFGKGGTHRTAAEMGLKV  233 (295)
Q Consensus       215 ~~~~~~~~~~~~~~~g~~~  233 (295)
                       ........++.+.++.++
T Consensus       138 -~v~~~e~~~~~~~~~~~~  155 (186)
T d2f7sa1         138 -EVNERQARELADKYGIPY  155 (186)
T ss_dssp             -CSCHHHHHHHHHHTTCCE
T ss_pred             -cchHHHHHHHHHHcCCEE
Confidence             112234566666666543

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=80.03  E-value=0.56  Score=33.70  Aligned_cols=68  Identities=12%  Similarity=0.007  Sum_probs=36.1

Q ss_pred             CCccEEEEcCCCCCCccchhhhhhccCceEEEeeCCC-cchHHHHHHHHHHHhc---CCCCeeeEEeccccC
Q 022525          138 GNLDILVIDMPPGTGDAQLTTTQTLQLSGALIVSTPQ-DVALIDARKGITMFSK---VQVPILGLVENMSCF  205 (295)
Q Consensus       138 ~~yD~iiiD~~~~~~~~~~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~l~~---~~~~~~~~ViN~~~~  205 (295)
                      ..+.+.+.|.+...............++.++++...+ ..+..........+..   ....++.+|.|+.+.
T Consensus        57 ~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl  128 (177)
T d1zj6a1          57 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  128 (177)
T ss_dssp             TTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTS
T ss_pred             cceEEEEeccccccccccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccc
Confidence            4577888888764433333344455667766665443 4445444443433332   233445588999874

>d1hdca_ c.2.1.2 (A:) 3-alpha,20-beta-hydroxysteroid dehydrogenase {Streptomyces hydrogenans [TaxId: 1905]}

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: 3-alpha,20-beta-hydroxysteroid dehydrogenase
species: Streptomyces hydrogenans [TaxId: 1905]

Probab=80.03  E-value=0.67  Score=36.07  Aligned_cols=35  Identities=20%  Similarity=0.255  Sum_probs=30.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+.     +|..|++ .|.+|++.|-+.
T Consensus         5 gK~alVTGas~GIG~a-----ia~~la~-~Ga~V~~~~r~~   39 (254)
T d1hdca_           5 GKTVIITGGARGLGAE-----AARQAVA-AGARVVLADVLD   39 (254)
T ss_dssp             CSEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCcCCHHHHH-----HHHHHHH-CCCEEEEEECCH
Confidence            6999999999999975     6788999 999999998654

>d1vcoa2 c.37.1.10 (A:11-282) CTP synthase PyrG, N-terminal domain {Thermus thermophilus [TaxId: 274]}

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: CTP synthase PyrG, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=80.02  E-value=1.5  Score=33.99  Aligned_cols=41  Identities=17%  Similarity=0.238  Sum_probs=34.8

Q ss_pred             eEEEEe-eCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCC
Q 022525           32 DVIAVA-SGKGGVGKSTTAVNLAVALASKCQLKVGLLDADVYG   73 (295)
Q Consensus        32 ~vI~i~-s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~   73 (295)
                      |-|.|+ +--.|.||-.+|+.+|..|.. +|.+|..+-+||--
T Consensus         3 kyifvtGGV~S~lGKGi~~asig~ll~~-~g~~v~~~K~DpYl   44 (272)
T d1vcoa2           3 KYVFITGGVVSSLGKGILTSSLGALLRA-RGYRVTAIKIDPYV   44 (272)
T ss_dssp             EEEEEEECSSSCSCHHHHHHHHHHHHHT-TTCCEEEEEEECSS
T ss_pred             eEEEEeCCcccccccHHHHHHHHHHHHh-CCCceeEEeeccce
Confidence            444444 446789999999999999999 99999999999865

>d1nffa_ c.2.1.2 (A:) Putative oxidoreductase Rv2002 {Mycobacterium tuberculosis [TaxId: 1773]}

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: Putative oxidoreductase Rv2002
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=80.01  E-value=0.7  Score=35.73  Aligned_cols=35  Identities=29%  Similarity=0.219  Sum_probs=30.6

Q ss_pred             CeEEEEeeCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCC
Q 022525           31 KDVIAVASGKGGVGKSTTAVNLAVALASKCQLKVGLLDADV   71 (295)
Q Consensus        31 ~~vI~i~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~   71 (295)
                      +|++.|+++.+|.|+.     +|..|++ .|.+|++.|.+.
T Consensus         6 gK~alITGas~GIG~a-----ia~~la~-~G~~V~~~~r~~   40 (244)
T d1nffa_           6 GKVALVSGGARGMGAS-----HVRAMVA-EGAKVVFGDILD   40 (244)
T ss_dssp             TCEEEEETTTSHHHHH-----HHHHHHH-TTCEEEEEESCH
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHH-CCCEEEEEECCH
Confidence            6999999999999975     6778999 999999998764