Citrus Sinensis ID: 040481

---

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--
Protein Sequence
MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR
Secondary Structure (PSIPRED)
ccccccccccccccEEEEEEEEccccccHHHHHHHHHcccccccccccccEEEEEEEEEEccEEEEEEEEccccHHHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHHHHHHccccccEEEEEEEcccccccccccHHHHHHHHHHccccEEEccccccccHHHHHHHHHHHHHHHHccccccccccccccccccEEEEccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccEEEEEEEEEcccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcHHHHHHccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHccccHHHcccccccccccccccccccEccccccccccccccccccc
Coil and Loop (DISEMBL)
msssdeegggggeeYLFKIVIIGDSAVGKSNLLSryarnefnphskatiGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGnkcdlesirNVSTEEGKSLAEAEGLFFmetsaldstnvKSAFEIVIREIYSNVsrkvlnsdsykaELSLNRVTLVKsetdgskqtsgyfsccsr
Flexible Loop (DISEMBL)
msssdeegggggEEYLFKIVIIGDSAVGKSNLLSRYARnefnphskatigVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDelkthsdttvaRMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIysnvsrkvlnsdsykaelslnrvtlvksetdgskqtsgyfsccsr
Low Complexity Region (SEG)
MSSSDeegggggeeYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR
Disordered region (IsUnstruct)
**************YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV********AEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELSLNRVTL********************
Disordered Region (DISOPRED)
*************EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY*************************************YFSCCS*
Disordered Region (DISEMBL)
**********GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELSLNRVTLVK******************
Disordered Region (DISPRO)
**********GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK**************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	222	2.2.26 [Sep-21-2011]
P28187	214	Ras-related protein RABA5	yes	no	0.963	1.0	0.819	1e-102
Q9SIP0	219	Ras-related protein RABA5	no	no	0.972	0.986	0.828	1e-102
P19892	218	Ras-related protein RABA5	no	no	0.972	0.990	0.819	1e-101
Q9SRS5	217	Ras-related protein RABA5	no	no	0.945	0.967	0.781	9e-92
Q9FGK5	221	Ras-related protein RABA5	no	no	0.927	0.932	0.666	7e-78
Q40191	226	Ras-related protein Rab11	N/A	no	0.819	0.805	0.636	8e-67
Q39572	216	Ras-related protein YPTC6	N/A	no	0.923	0.949	0.576	9e-67
P25766	226	Ras-related protein RGP1	no	no	0.806	0.792	0.646	1e-65
Q9LH50	222	Ras-related protein RABA4	no	no	0.918	0.918	0.551	7e-65
Q39434	214	Ras-related protein Rab2B	N/A	no	0.918	0.953	0.548	2e-64

>sp|P28187|RAA5C_ARATH Ras-related protein RABA5c OS=Arabidopsis thaliana GN=RABA5C PE=1 SV=1

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 182/222 (81%), Positives = 201/222 (90%), Gaps = 8/222 (3%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MS  DE G    EEYLFKIVIIGDSAVGKSNLL+RYARNEFNP+SKATIGVEFQTQSM I
Sbjct: 1   MSDDDERG----EEYLFKIVIIGDSAVGKSNLLTRYARNEFNPNSKATIGVEFQTQSMLI 56

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL+VYDITR +TF+++ RWLDEL THSDT
Sbjct: 57  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALVVYDITRSSTFENVGRWLDELNTHSDT 116

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVA+ML+GNKCDLESIR VS EEGKSLAE+EGLFFMETSALDSTNVK+AFE+VIREIYSN
Sbjct: 117 TVAKMLIGNKCDLESIRAVSVEEGKSLAESEGLFFMETSALDSTNVKTAFEMVIREIYSN 176

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           +SRK LNSDSYK EL++NRV+LVK+E +G+K     FSCCSR
Sbjct: 177 ISRKQLNSDSYKEELTVNRVSLVKNENEGTKT----FSCCSR 214

Intracellular vesicle trafficking and protein transport. Binds GTP and GDP and possesses intrinsic GTPase activity.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIP0|RAA5D_ARATH Ras-related protein RABA5d OS=Arabidopsis thaliana GN=RABA5D PE=2 SV=1

 Score =  370 bits (951), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 184/222 (82%), Positives = 201/222 (90%), Gaps = 6/222 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSS DE    GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQ+MEI
Sbjct: 1   MSSDDE----GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNAHSKATIGVEFQTQNMEI 56

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           +GKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL+VYDI+RR+TF+S+ RWLDELKTHSDT
Sbjct: 57  EGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALVVYDISRRSTFESVGRWLDELKTHSDT 116

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVARMLVGNKCDLESIR VS EEGK+LAE EGLFFMETSALDSTNVK+AFE+VIR+IY+N
Sbjct: 117 TVARMLVGNKCDLESIRAVSVEEGKALAETEGLFFMETSALDSTNVKTAFEMVIRDIYTN 176

Query: 181 VSRKVLNSDSYKAELSL-NRVTLVKSETDGSKQTSGYFSCCS 221
           +SRK LNSD+YK ELS+ NRV+LVK +   S Q  G FSCCS
Sbjct: 177 ISRKQLNSDTYKTELSMKNRVSLVKDDNKSSTQGFG-FSCCS 217

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|P19892|RAA5E_ARATH Ras-related protein RABA5e OS=Arabidopsis thaliana GN=RABA5E PE=2 SV=1

 Score =  366 bits (940), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 181/221 (81%), Positives = 201/221 (90%), Gaps = 5/221 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSS DE    G EEYLFKIV+IGDSAVGKSNLLSRYARNEF+ +SKATIGVEFQTQSMEI
Sbjct: 1   MSSDDE----GREEYLFKIVVIGDSAVGKSNLLSRYARNEFSANSKATIGVEFQTQSMEI 56

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           +GKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL+VYDITRRTTF+S+ RWLDELK HSDT
Sbjct: 57  EGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALVVYDITRRTTFESVGRWLDELKIHSDT 116

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVARMLVGNKCDLE+IR VS EEGK+LAE EGLFF+ETSALDSTNVK+AFE+VI +IY+N
Sbjct: 117 TVARMLVGNKCDLENIRAVSVEEGKALAEEEGLFFVETSALDSTNVKTAFEMVILDIYNN 176

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCS 221
           VSRK LNSD+YK EL++NRV+LVK +   SKQ+SG FSCCS
Sbjct: 177 VSRKQLNSDTYKDELTVNRVSLVKDDNSASKQSSG-FSCCS 216

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SRS5|RAA5B_ARATH Ras-related protein RABA5b OS=Arabidopsis thaliana GN=RABA5B PE=2 SV=1

 Score =  336 bits (861), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 165/211 (78%), Positives = 188/211 (89%), Gaps = 1/211 (0%)

Query: 12  GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD 71
           GEEYLFKIV+IGDSAVGKSNLLSR++R+EF+ +SKATIGVEFQTQ +EI+GKEVKAQIWD
Sbjct: 8   GEEYLFKIVLIGDSAVGKSNLLSRFSRDEFDTNSKATIGVEFQTQLVEIEGKEVKAQIWD 67

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC 131
           TAGQERFRAVTSAYYRGA GALIVYDITR  TF+S+ RWL EL TH DT VA+MLVGNKC
Sbjct: 68  TAGQERFRAVTSAYYRGAFGALIVYDITRGDTFESVKRWLQELNTHCDTAVAQMLVGNKC 127

Query: 132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSY 191
           DLE IR VS EEGK+LAE EGLFFMETSALD+TNV  AFEIVIREI++NVSRK+LNSD+Y
Sbjct: 128 DLEDIRAVSVEEGKALAEEEGLFFMETSALDATNVDKAFEIVIREIFNNVSRKLLNSDAY 187

Query: 192 KAELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           KAELS+NRV+LV ++ DGS+ +    SCCSR
Sbjct: 188 KAELSVNRVSLVNNQ-DGSESSWRNPSCCSR 217

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FGK5|RAA5A_ARATH Ras-related protein RABA5a OS=Arabidopsis thaliana GN=RABA5A PE=2 SV=1

 Score =  290 bits (741), Expect = 7e-78,   Method: Compositional matrix adjust.
 Identities = 142/213 (66%), Positives = 173/213 (81%), Gaps = 7/213 (3%)

Query: 13  EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDT 72
           E+YLFKIV+IGDSAVGKSNLL+R+AR+EF P+SK+TIGVEFQTQ M+I+GKE+KAQIWDT
Sbjct: 11  EDYLFKIVLIGDSAVGKSNLLARFARDEFYPNSKSTIGVEFQTQKMDINGKEIKAQIWDT 70

Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD 132
           AGQERFRAVTSAYYRGAVGAL+VYDI+RR TF SI RWL+EL THSD  V  +LVGNK D
Sbjct: 71  AGQERFRAVTSAYYRGAVGALLVYDISRRQTFHSIGRWLNELHTHSDMNVVTILVGNKSD 130

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSY- 191
           L+ +R VST EGK+LAEA+GLFFMETSALDS+NV +AFE V++EIY+ +SRKV++S    
Sbjct: 131 LKDLREVSTAEGKALAEAQGLFFMETSALDSSNVAAAFETVVKEIYNILSRKVMSSQELN 190

Query: 192 ---KAELSLNRVTLVKSETDGSKQTSGYFSCCS 221
               A LS  +  ++ S+  G  +  G   CCS
Sbjct: 191 KQDPASLSNGKKVVIPSDGQGEFKKGG---CCS 220

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40191|RB11A_LOTJA Ras-related protein Rab11A OS=Lotus japonicus GN=RAB11A PE=2 SV=1

 Score =  253 bits (646), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 119/187 (63%), Positives = 154/187 (82%), Gaps = 5/187 (2%)

Query: 8   GGGGGE-----EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG 62
           GGG G+     +Y+FK+V+IGDSAVGKS +L+R+ARNEF+  SK+TIGVEFQT+++ ID 
Sbjct: 4   GGGYGDANAKIDYVFKVVLIGDSAVGKSQILARFARNEFSLDSKSTIGVEFQTRTLVIDH 63

Query: 63  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTV 122
           K VKAQIWDTAGQER+RAVTSAYYRGAVGA++VYDIT+R TFD I RWL+EL+ H+D  +
Sbjct: 64  KTVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQTFDHIPRWLEELRNHADKNI 123

Query: 123 ARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
             +L+GNKCDL + R+V TE+ K  AE EGLFF+ETSAL++TNV+SAF  V+ EIY+ V+
Sbjct: 124 VIILIGNKCDLVNQRDVPTEDAKEFAEKEGLFFLETSALEATNVESAFTTVLTEIYNIVN 183

Query: 183 RKVLNSD 189
           +K L +D
Sbjct: 184 KKSLAAD 190

Lotus japonicus (taxid: 34305)

>sp|Q39572|YPTC6_CHLRE Ras-related protein YPTC6 OS=Chlamydomonas reinhardtii GN=YPTC6 PE=3 SV=1

 Score =  253 bits (645), Expect = 9e-67,   Method: Compositional matrix adjust.
 Identities = 121/210 (57%), Positives = 163/210 (77%), Gaps = 5/210 (2%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+V+IGDS VGKSNLLSR+ RNEF+  SK+TIGVEF T+S+++DGK +KAQIWDTA
Sbjct: 10  DYLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 69

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+RA+TSAYYRGAVGAL+VYDIT+  TF+++ RWL EL+ H+D+ +  MLVGNK DL
Sbjct: 70  GQERYRAITSAYYRGAVGALLVYDITKSVTFENVERWLKELRDHADSNIVIMLVGNKSDL 129

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
           + +R+V TE  ++  E EGL F+ETSAL+STNV+ AF+ ++ EIY  VS+KVL+S+  + 
Sbjct: 130 KHLRDVQTEVAQAFCEREGLSFIETSALESTNVEKAFQQILTEIYHIVSKKVLDSEDNRP 189

Query: 194 ELSLNRVTLV--KSETDGSKQTSGYFSCCS 221
           ++   R  +V   +  DG K+  G   CCS
Sbjct: 190 KIGEGRDVIVIDNAHDDGGKKKGG---CCS 216

Chlamydomonas reinhardtii (taxid: 3055)

>sp|P25766|RLGP1_ORYSJ Ras-related protein RGP1 OS=Oryza sativa subsp. japonica GN=RGP1 PE=2 SV=2

 Score =  249 bits (635), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 119/184 (64%), Positives = 149/184 (80%), Gaps = 5/184 (2%)

Query: 8   GGGGGE-----EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG 62
           GG  GE     +Y+FK+V+IGDSAVGKS LL+R+ARNEFN  SKATIGVEFQT+++ ID 
Sbjct: 5   GGSYGEVGQKIDYVFKVVLIGDSAVGKSQLLARFARNEFNLDSKATIGVEFQTRTLHIDA 64

Query: 63  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTV 122
           + VKAQIWDTAGQER+RAVTSAYYRGAVGA++VYDIT+R +FD ++RWL+EL+ H+D  +
Sbjct: 65  RTVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNI 124

Query: 123 ARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
             ML+GNK DL ++R V TE+ K  AE E LFFMETSAL+STNV++AF  V+ EIY  VS
Sbjct: 125 VIMLIGNKSDLGTLRVVPTEDAKEFAERENLFFMETSALESTNVENAFMTVLTEIYRIVS 184

Query: 183 RKVL 186
           +K L
Sbjct: 185 KKNL 188

May play an important role in plant growth and development.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9LH50|RAA4D_ARATH Ras-related protein RABA4d OS=Arabidopsis thaliana GN=RABA4D PE=1 SV=1

 Score =  246 bits (629), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 118/214 (55%), Positives = 163/214 (76%), Gaps = 10/214 (4%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +Y+FK+V+IGDSAVGK+ LL+R+ARNEF+  SKATIGVEFQT+++ ID K VKAQIWDTA
Sbjct: 13  DYVFKVVLIGDSAVGKTQLLARFARNEFSVDSKATIGVEFQTKTLVIDNKTVKAQIWDTA 72

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+RAVTSAYYRGAVGA++VYD+T+R +FD +++WL+EL+ H+D  +  ML+GNKCDL
Sbjct: 73  GQERYRAVTSAYYRGAVGAMLVYDMTKRQSFDHMAKWLEELRGHADKNIVIMLIGNKCDL 132

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
            S+R V TE+ +  A+ E LFFMETSAL++TNV++AF  ++ EIY  +S+K L +D   A
Sbjct: 133 GSLRAVPTEDAQEFAQRENLFFMETSALEATNVETAFLTILTEIYRIISKKSLTADDDDA 192

Query: 194 E-----LSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           +     L   R+ ++ SE +  K+      CC +
Sbjct: 193 DGNSSLLKGTRI-IIPSEQESGKRG----GCCGK 221

Intracellular vesicle trafficking and protein transport. Plays an important role in the regulation of pollen tube tip growth.

Arabidopsis thaliana (taxid: 3702)

>sp|Q39434|RB2BV_BETVU Ras-related protein Rab2BV OS=Beta vulgaris GN=RAB2BV PE=2 SV=1

 Score =  245 bits (625), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 114/208 (54%), Positives = 159/208 (76%), Gaps = 4/208 (1%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFKIV+IGDS VGKSN+LSR+ RNEF   SK+TIGVEF T++++++GK VKAQIWDTA
Sbjct: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+RA+TSAYYRGAVGAL+VYDIT+R TFD++ RWL EL+ H+D+ +  M+ GNK DL
Sbjct: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDL 129

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
           + +R VS E+G++LAE EGL F+ETSAL++ N++ AF+ ++ EIY  +S+K L +    +
Sbjct: 130 KHLRAVSEEDGQALAEKEGLSFLETSALEAVNIEKAFQTILTEIYHIISKKALAAQEASS 189

Query: 194 ELSLNRVTLVKSETDGSKQTSGYFSCCS 221
            L     T+  ++   +++     SCCS
Sbjct: 190 NLPGQGTTINVADASANQRR----SCCS 213

Beta vulgaris (taxid: 161934)

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	222
224065032	217	predicted protein [Populus trichocarpa]	0.972	0.995	0.904	1e-109
255572910	218	protein with unknown function [Ricinus c	0.977	0.995	0.892	1e-108
224131546	217	predicted protein [Populus trichocarpa]	0.972	0.995	0.890	1e-107
449468736	217	PREDICTED: ras-related protein RABA5d-li	0.977	1.0	0.864	1e-105
1370154	219	RAB11G [Lotus japonicus]	0.981	0.995	0.855	1e-105
356569119	219	PREDICTED: ras-related protein RABA5d-li	0.986	1.0	0.842	1e-104
356527445	219	PREDICTED: ras-related protein RABA5d-li	0.986	1.0	0.842	1e-103
147784781	215	hypothetical protein VITISV_043978 [Viti	0.959	0.990	0.847	1e-102
359478027	302	PREDICTED: ras-related protein RABA5c-li	0.959	0.705	0.847	1e-102
623584	209	putative, partial [Nicotiana tabacum]	0.941	1.0	0.866	1e-102

>gi|224065032|ref|XP_002301639.1| predicted protein [Populus trichocarpa] gi|222843365|gb|EEE80912.1| predicted protein [Populus trichocarpa]

 Score =  399 bits (1025), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 199/220 (90%), Positives = 207/220 (94%), Gaps = 4/220 (1%)

Query: 3   SSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG 62
           SSDEEGG   EEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQSMEIDG
Sbjct: 2   SSDEEGG---EEYLFKIVIIGDSAVGKSNLLSRYARNEFNLHSKATIGVEFQTQSMEIDG 58

Query: 63  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTV 122
           KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI+RRTTFDS+ RWLDELKTHSDTTV
Sbjct: 59  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDISRRTTFDSVGRWLDELKTHSDTTV 118

Query: 123 ARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
           A MLVGNKCDLE+IR+VS EEGKSLAEAEGLFFMETSALDSTNVK AFEIVIREIY+NVS
Sbjct: 119 AMMLVGNKCDLENIRDVSVEEGKSLAEAEGLFFMETSALDSTNVKKAFEIVIREIYNNVS 178

Query: 183 RKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           RKVLNSD+YKAELSLNRVTLV + +D SKQ  GYFSCCSR
Sbjct: 179 RKVLNSDTYKAELSLNRVTLVNNGSD-SKQAQGYFSCCSR 217

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572910|ref|XP_002527386.1| protein with unknown function [Ricinus communis] gi|223533238|gb|EEF34993.1| protein with unknown function [Ricinus communis]

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 199/223 (89%), Positives = 209/223 (93%), Gaps = 6/223 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSS DE    GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQSMEI
Sbjct: 1   MSSDDE----GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNLHSKATIGVEFQTQSMEI 56

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI+RRTTFDS+ RWLDELKTHSDT
Sbjct: 57  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDISRRTTFDSVGRWLDELKTHSDT 116

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVARMLVGNKCDLE+IR+V+ EEGKSLAEAEGLFFMETSALDSTNVK AFEIVIREIY+N
Sbjct: 117 TVARMLVGNKCDLENIRDVTVEEGKSLAEAEGLFFMETSALDSTNVKKAFEIVIREIYNN 176

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYF-SCCSR 222
           VSRKVLNSD+YKAELSLNRVTLV + +DGSKQ+  YF SCCSR
Sbjct: 177 VSRKVLNSDTYKAELSLNRVTLVNN-SDGSKQSQSYFSSCCSR 218

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131546|ref|XP_002321111.1| predicted protein [Populus trichocarpa] gi|222861884|gb|EEE99426.1| predicted protein [Populus trichocarpa]

 Score =  392 bits (1008), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 196/220 (89%), Positives = 203/220 (92%), Gaps = 4/220 (1%)

Query: 3   SSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG 62
           SSDEEGG   EEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQSMEIDG
Sbjct: 2   SSDEEGG---EEYLFKIVIIGDSAVGKSNLLSRYARNEFNLHSKATIGVEFQTQSMEIDG 58

Query: 63  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTV 122
           KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI+RRTTFDS+ RWLDELKTHSDTTV
Sbjct: 59  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDISRRTTFDSVGRWLDELKTHSDTTV 118

Query: 123 ARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
           A MLVGNKCDLE+IR+VS EE K LAEAEGLFFMETSALDSTNVK AFEIVIREIY+NVS
Sbjct: 119 AMMLVGNKCDLENIRDVSVEEAKCLAEAEGLFFMETSALDSTNVKKAFEIVIREIYNNVS 178

Query: 183 RKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           RKVLNSD+YKAELSLNRVTLV +  D SKQ   YFSCCSR
Sbjct: 179 RKVLNSDTYKAELSLNRVTLVNNGND-SKQAQSYFSCCSR 217

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468736|ref|XP_004152077.1| PREDICTED: ras-related protein RABA5d-like [Cucumis sativus] gi|449502254|ref|XP_004161590.1| PREDICTED: ras-related protein RABA5d-like [Cucumis sativus]

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 192/222 (86%), Positives = 206/222 (92%), Gaps = 5/222 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSSSD+EGG   EEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQ M+I
Sbjct: 1   MSSSDDEGG---EEYLFKIVIIGDSAVGKSNLLSRYARNEFNLHSKATIGVEFQTQVMDI 57

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI+RR+TFDS+ RWLDELKTHSDT
Sbjct: 58  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDISRRSTFDSVGRWLDELKTHSDT 117

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVA MLVGNKCDLE+IR+VS E+G SLAEAEGLFFMETSALDSTNVK AFEIVIREIY+N
Sbjct: 118 TVAMMLVGNKCDLENIRDVSVEDGTSLAEAEGLFFMETSALDSTNVKRAFEIVIREIYNN 177

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           VSRKVLNSD+YKAELS+NRV+LV +   GSKQ+ GY SCCSR
Sbjct: 178 VSRKVLNSDTYKAELSVNRVSLVNN--GGSKQSEGYLSCCSR 217

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1370154|emb|CAA98183.1| RAB11G [Lotus japonicus]

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 189/221 (85%), Positives = 205/221 (92%), Gaps = 3/221 (1%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSSS++EGG   EEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQS+EI
Sbjct: 1   MSSSEDEGG---EEYLFKIVIIGDSAVGKSNLLSRYARNEFNMHSKATIGVEFQTQSLEI 57

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           D KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDS+SRWLDELKTH DT
Sbjct: 58  DSKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSVSRWLDELKTHCDT 117

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVA MLVGNKCDLE+IR VS EEGKSLAEA+GLFFMETSALDSTNV++AFE+VIREIY+N
Sbjct: 118 TVAMMLVGNKCDLENIRAVSIEEGKSLAEAQGLFFMETSALDSTNVRTAFEMVIREIYNN 177

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCS 221
           VSRKVLNSD+YKAELS++RV+LV +    SKQ+  YFSCCS
Sbjct: 178 VSRKVLNSDTYKAELSVDRVSLVNNGAATSKQSKSYFSCCS 218

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356569119|ref|XP_003552753.1| PREDICTED: ras-related protein RABA5d-like [Glycine max]

 Score =  381 bits (979), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 187/222 (84%), Positives = 202/222 (90%), Gaps = 3/222 (1%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MS S++EGG   EEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQ +EI
Sbjct: 1   MSGSEDEGG---EEYLFKIVIIGDSAVGKSNLLSRYARNEFNMHSKATIGVEFQTQCLEI 57

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           D KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI+RRTTFDS+ RWLDELKTH DT
Sbjct: 58  DSKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDISRRTTFDSVGRWLDELKTHCDT 117

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVA MLVGNKCDLE+IR VS +EGKSLAEAEGLFFMETSALDSTNVK+AFE+VIREIY+N
Sbjct: 118 TVAMMLVGNKCDLENIRAVSVDEGKSLAEAEGLFFMETSALDSTNVKTAFEMVIREIYTN 177

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           VSRKVLNS++YKAELS+NRV+LV +    SKQ   YFSCCSR
Sbjct: 178 VSRKVLNSETYKAELSVNRVSLVNNGASTSKQNQPYFSCCSR 219

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527445|ref|XP_003532321.1| PREDICTED: ras-related protein RABA5d-like [Glycine max] gi|499068|emb|CAA54506.1| GTPase [Glycine max]

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 187/222 (84%), Positives = 201/222 (90%), Gaps = 3/222 (1%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MS S++EGG   EEYLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQ +EI
Sbjct: 1   MSGSEDEGG---EEYLFKIVIIGDSAVGKSNLLSRYARNEFNMHSKATIGVEFQTQCLEI 57

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           D KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI+RRTTFDS+ RWLDELKTH DT
Sbjct: 58  DSKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDISRRTTFDSVGRWLDELKTHCDT 117

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           TVA MLVGNKCDLE+IR VS +EGKSLAEAEGLFFMETSALDSTNVK AFE+VIREIY+N
Sbjct: 118 TVAMMLVGNKCDLENIRAVSIDEGKSLAEAEGLFFMETSALDSTNVKMAFEMVIREIYNN 177

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           VSRKVLNS++YKAELS+NRV+LV +    SKQ   YFSCCSR
Sbjct: 178 VSRKVLNSETYKAELSVNRVSLVNNGAATSKQNQTYFSCCSR 219

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147784781|emb|CAN66526.1| hypothetical protein VITISV_043978 [Vitis vinifera]

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 184/217 (84%), Positives = 203/217 (93%), Gaps = 4/217 (1%)

Query: 5   DEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKE 64
           DEEG    EEYLFK+VIIGDSAVGKSNLLSRYARNEFN +SKATIGVEFQTQSMEIDGKE
Sbjct: 3   DEEG----EEYLFKVVIIGDSAVGKSNLLSRYARNEFNINSKATIGVEFQTQSMEIDGKE 58

Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           VKAQIWDTAGQERFRAVTSAYYRGAVGAL+VYDI+RR+TFDS++RWLDELKTHS+TTVAR
Sbjct: 59  VKAQIWDTAGQERFRAVTSAYYRGAVGALVVYDISRRSTFDSVARWLDELKTHSETTVAR 118

Query: 125 MLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
           MLVGNK DLE+IR+VS EEGKSLAEAEGLFF+ETSALDSTNVK AFEIVIREIY+N+SRK
Sbjct: 119 MLVGNKSDLENIRDVSVEEGKSLAEAEGLFFIETSALDSTNVKKAFEIVIREIYNNISRK 178

Query: 185 VLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCS 221
           VLNSDSYKAELS+NRV+LV +  DG+KQ +  +SCCS
Sbjct: 179 VLNSDSYKAELSVNRVSLVSNGADGAKQANSRYSCCS 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359478027|ref|XP_002264559.2| PREDICTED: ras-related protein RABA5c-like isoform 2 [Vitis vinifera]

 Score =  377 bits (968), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 184/217 (84%), Positives = 203/217 (93%), Gaps = 4/217 (1%)

Query: 5   DEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKE 64
           DEEG    EEYLFK+VIIGDSAVGKSNLLSRYARNEFN +SKATIGVEFQTQSMEIDGKE
Sbjct: 90  DEEG----EEYLFKVVIIGDSAVGKSNLLSRYARNEFNINSKATIGVEFQTQSMEIDGKE 145

Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           VKAQIWDTAGQERFRAVTSAYYRGAVGAL+VYDI+RR+TFDS++RWLDELKTHS+TTVAR
Sbjct: 146 VKAQIWDTAGQERFRAVTSAYYRGAVGALVVYDISRRSTFDSVARWLDELKTHSETTVAR 205

Query: 125 MLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
           MLVGNK DLE+IR+VS EEGKSLAEAEGLFF+ETSALDSTNVK AFEIVIREIY+N+SRK
Sbjct: 206 MLVGNKSDLENIRDVSVEEGKSLAEAEGLFFIETSALDSTNVKKAFEIVIREIYNNISRK 265

Query: 185 VLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCCS 221
           VLNSDSYKAELS+NRV+LV +  DG+KQ +  +SCCS
Sbjct: 266 VLNSDSYKAELSVNRVSLVSNGADGAKQANSRYSCCS 302

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|623584|gb|AAA74116.1| putative, partial [Nicotiana tabacum]

 Score =  376 bits (966), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 182/210 (86%), Positives = 198/210 (94%), Gaps = 1/210 (0%)

Query: 13  EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDT 72
           EEYLFKIVIIGDSAVGKSNLL+RYARNEFN HSKATIGVEFQTQ++EIDGKEVKAQIWDT
Sbjct: 1   EEYLFKIVIIGDSAVGKSNLLTRYARNEFNLHSKATIGVEFQTQTLEIDGKEVKAQIWDT 60

Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD 132
           AGQERFRAVTSAYYRGA GAL+VYDITRRTTFDSI RWLDELKTHSDTTVARMLVGNKCD
Sbjct: 61  AGQERFRAVTSAYYRGAFGALVVYDITRRTTFDSIPRWLDELKTHSDTTVARMLVGNKCD 120

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYK 192
           L++IR VS EEGKSLAE+EG+FFMETSALD+TNV  AF++VIREIY++VSRKVLNSDSYK
Sbjct: 121 LDNIRAVSVEEGKSLAESEGMFFMETSALDATNVNKAFDMVIREIYNSVSRKVLNSDSYK 180

Query: 193 AELSLNRVTLVKSETDGSKQTSGYFSCCSR 222
           AELS+NRV+LV + TDGSKQ  GY SCCSR
Sbjct: 181 AELSVNRVSLVDNGTDGSKQNQGY-SCCSR 209

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

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	222
TAIR|locus:2041036	214	ARA4 [Arabidopsis thaliana (ta	0.918	0.953	0.841	1.7e-89
TAIR|locus:2065858	219	RABA5d "RAB GTPase homolog A5D	0.927	0.940	0.841	9.6e-89
TAIR|locus:2079631	217	RABA5b "RAB GTPase homolog A5B	0.932	0.953	0.778	3.2e-81
TAIR|locus:2169053	221	RABA5a "RAB GTPase homolog A5A	0.918	0.923	0.668	3e-69
TAIR|locus:2082269	222	RABA4D "RAB GTPase homolog A4D	0.918	0.918	0.566	2.7e-59
UNIPROTKB|Q5F3R8	218	RAB11B "Uncharacterized protei	0.918	0.935	0.576	9.3e-59
TAIR|locus:2168469	217	RABA2D "RAB GTPase homolog A2D	0.914	0.935	0.561	9.3e-59
TAIR|locus:2159285	217	RABA1f "RAB GTPase homolog A1F	0.923	0.944	0.584	9.3e-59
ZFIN|ZDB-GENE-041114-53	215	rab11a "RAB11a, member RAS onc	0.909	0.939	0.570	9.3e-59
TAIR|locus:2015576	216	RABA1b "RAB GTPase homolog A1B	0.914	0.939	0.572	1.2e-58

TAIR|locus:2041036 ARA4 [Arabidopsis thaliana (taxid:3702)]

 Score = 893 (319.4 bits), Expect = 1.7e-89, P = 1.7e-89
 Identities = 175/208 (84%), Positives = 194/208 (93%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFKIVIIGDSAVGKSNLL+RYARNEFNP+SKATIGVEFQTQSM IDGKEVKAQIWDTAG
Sbjct:    11 YLFKIVIIGDSAVGKSNLLTRYARNEFNPNSKATIGVEFQTQSMLIDGKEVKAQIWDTAG 70

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QERFRAVTSAYYRGAVGAL+VYDITR +TF+++ RWLDEL THSDTTVA+ML+GNKCDLE
Sbjct:    71 QERFRAVTSAYYRGAVGALVVYDITRSSTFENVGRWLDELNTHSDTTVAKMLIGNKCDLE 130

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
             SIR VS EEGKSLAE+EGLFFMETSALDSTNVK+AFE+VIREIYSN+SRK LNSDSYK E
Sbjct:   131 SIRAVSVEEGKSLAESEGLFFMETSALDSTNVKTAFEMVIREIYSNISRKQLNSDSYKEE 190

Query:   195 LSLNRVTLVKSETDGSKQTSGYFSCCSR 222
             L++NRV+LVK+E +G+K     FSCCSR
Sbjct:   191 LTVNRVSLVKNENEGTKT----FSCCSR 214

GO:0003924 "GTPase activity" evidence=IEA;IDA

GO:0005525 "GTP binding" evidence=IEA;ISS;IDA

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005795 "Golgi stack" evidence=IDA

GO:0005798 "Golgi-associated vesicle" evidence=IDA

GO:0005802 "trans-Golgi network" evidence=IDA

GO:0009408 "response to heat" evidence=IEP

GO:0048219 "inter-Golgi cisterna vesicle-mediated transport" evidence=TAS

TAIR|locus:2065858 RABA5d "RAB GTPase homolog A5D" [Arabidopsis thaliana (taxid:3702)]

 Score = 886 (316.9 bits), Expect = 9.6e-89, P = 9.6e-89
 Identities = 175/208 (84%), Positives = 192/208 (92%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFKIVIIGDSAVGKSNLLSRYARNEFN HSKATIGVEFQTQ+MEI+GKEVKAQIWDTAG
Sbjct:    11 YLFKIVIIGDSAVGKSNLLSRYARNEFNAHSKATIGVEFQTQNMEIEGKEVKAQIWDTAG 70

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QERFRAVTSAYYRGAVGAL+VYDI+RR+TF+S+ RWLDELKTHSDTTVARMLVGNKCDLE
Sbjct:    71 QERFRAVTSAYYRGAVGALVVYDISRRSTFESVGRWLDELKTHSDTTVARMLVGNKCDLE 130

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
             SIR VS EEGK+LAE EGLFFMETSALDSTNVK+AFE+VIR+IY+N+SRK LNSD+YK E
Sbjct:   131 SIRAVSVEEGKALAETEGLFFMETSALDSTNVKTAFEMVIRDIYTNISRKQLNSDTYKTE 190

Query:   195 LSL-NRVTLVKSETDGSKQTSGYFSCCS 221
             LS+ NRV+LVK +   S Q  G FSCCS
Sbjct:   191 LSMKNRVSLVKDDNKSSTQGFG-FSCCS 217

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2079631 RABA5b "RAB GTPase homolog A5B" [Arabidopsis thaliana (taxid:3702)]

 Score = 815 (292.0 bits), Expect = 3.2e-81, P = 3.2e-81
 Identities = 162/208 (77%), Positives = 185/208 (88%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFKIV+IGDSAVGKSNLLSR++R+EF+ +SKATIGVEFQTQ +EI+GKEVKAQIWDTAG
Sbjct:    11 YLFKIVLIGDSAVGKSNLLSRFSRDEFDTNSKATIGVEFQTQLVEIEGKEVKAQIWDTAG 70

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QERFRAVTSAYYRGA GALIVYDITR  TF+S+ RWL EL TH DT VA+MLVGNKCDLE
Sbjct:    71 QERFRAVTSAYYRGAFGALIVYDITRGDTFESVKRWLQELNTHCDTAVAQMLVGNKCDLE 130

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
              IR VS EEGK+LAE EGLFFMETSALD+TNV  AFEIVIREI++NVSRK+LNSD+YKAE
Sbjct:   131 DIRAVSVEEGKALAEEEGLFFMETSALDATNVDKAFEIVIREIFNNVSRKLLNSDAYKAE 190

Query:   195 LSLNRVTLVKSETDGSKQTSGYFSCCSR 222
             LS+NRV+LV ++ DGS+ +    SCCSR
Sbjct:   191 LSVNRVSLVNNQ-DGSESSWRNPSCCSR 217

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

TAIR|locus:2169053 RABA5a "RAB GTPase homolog A5A" [Arabidopsis thaliana (taxid:3702)]

 Score = 702 (252.2 bits), Expect = 3.0e-69, P = 3.0e-69
 Identities = 141/211 (66%), Positives = 171/211 (81%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFKIV+IGDSAVGKSNLL+R+AR+EF P+SK+TIGVEFQTQ M+I+GKE+KAQIWDTAG
Sbjct:    13 YLFKIVLIGDSAVGKSNLLARFARDEFYPNSKSTIGVEFQTQKMDINGKEIKAQIWDTAG 72

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QERFRAVTSAYYRGAVGAL+VYDI+RR TF SI RWL+EL THSD  V  +LVGNK DL+
Sbjct:    73 QERFRAVTSAYYRGAVGALLVYDISRRQTFHSIGRWLNELHTHSDMNVVTILVGNKSDLK 132

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYK-- 192
              +R VST EGK+LAEA+GLFFMETSALDS+NV +AFE V++EIY+ +SRKV++S      
Sbjct:   133 DLREVSTAEGKALAEAQGLFFMETSALDSSNVAAAFETVVKEIYNILSRKVMSSQELNKQ 192

Query:   193 --AELSLNRVTLVKSETDGSKQTSGYFSCCS 221
               A LS  +  ++ S+  G  +  G   CCS
Sbjct:   193 DPASLSNGKKVVIPSDGQGEFKKGG---CCS 220

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

TAIR|locus:2082269 RABA4D "RAB GTPase homolog A4D" [Arabidopsis thaliana (taxid:3702)]

 Score = 608 (219.1 bits), Expect = 2.7e-59, P = 2.7e-59
 Identities = 120/212 (56%), Positives = 164/212 (77%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             Y+FK+V+IGDSAVGK+ LL+R+ARNEF+  SKATIGVEFQT+++ ID K VKAQIWDTAG
Sbjct:    14 YVFKVVLIGDSAVGKTQLLARFARNEFSVDSKATIGVEFQTKTLVIDNKTVKAQIWDTAG 73

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QER+RAVTSAYYRGAVGA++VYD+T+R +FD +++WL+EL+ H+D  +  ML+GNKCDL 
Sbjct:    74 QERYRAVTSAYYRGAVGAMLVYDMTKRQSFDHMAKWLEELRGHADKNIVIMLIGNKCDLG 133

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
             S+R V TE+ +  A+ E LFFMETSAL++TNV++AF  ++ EIY  +S+K L +D   A+
Sbjct:   134 SLRAVPTEDAQEFAQRENLFFMETSALEATNVETAFLTILTEIYRIISKKSLTADDDDAD 193

Query:   195 --LSLNRVT--LVKSETDGSKQTSGYFSCCSR 222
                SL + T  ++ SE +  K+  G   CC +
Sbjct:   194 GNSSLLKGTRIIIPSEQESGKR--G--GCCGK 221

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0009860 "pollen tube growth" evidence=RCA;IDA

GO:0045177 "apical part of cell" evidence=IDA

GO:0070382 "exocytic vesicle" evidence=IDA

GO:0048868 "pollen tube development" evidence=IGI;RCA

GO:0019900 "kinase binding" evidence=IPI

GO:0080092 "regulation of pollen tube growth" evidence=IMP

GO:0090404 "pollen tube tip" evidence=IDA

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

GO:0048610 "cellular process involved in reproduction" evidence=RCA

UNIPROTKB|Q5F3R8 RAB11B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 603 (217.3 bits), Expect = 9.3e-59, P = 9.3e-59
 Identities = 120/208 (57%), Positives = 151/208 (72%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct:    10 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 69

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D  +  MLVGNK DL 
Sbjct:    70 QERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADNNIVIMLVGNKSDLR 129

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
              +R V T+E ++ AE   L F+ETSALDSTNV+ AF+ ++ EIY  VS+K +   S   E
Sbjct:   130 HLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRSAHDE 189

Query:   195 LSLNRVT--LVKSETDGSKQTSGYFSCC 220
                N V    V   TDG K  S    CC
Sbjct:   190 SPGNNVVDISVPPTTDGQK--SNKLQCC 215

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0019003 "GDP binding" evidence=IEA

TAIR|locus:2168469 RABA2D "RAB GTPase homolog A2D" [Arabidopsis thaliana (taxid:3702)]

 Score = 603 (217.3 bits), Expect = 9.3e-59, P = 9.3e-59
 Identities = 118/210 (56%), Positives = 158/210 (75%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFKIV+IGDS VGK+N+LSR+ RNEF   SK+TIGVEF T++++++GK VKAQIWDTAG
Sbjct:    11 YLFKIVLIGDSGVGKTNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAG 70

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QER+RA+TSAYYRGAVGAL+VYDIT+R TFD++ RWL EL+ H+D+ +  M+ GNK DL 
Sbjct:    71 QERYRAITSAYYRGAVGALLVYDITKRQTFDNVLRWLRELRDHADSNIVIMMAGNKADLN 130

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
              +R+V+ E+G++LAE EGL F+ETSAL++TNV+ AF+ V+ EIY  +S+K L +    A 
Sbjct:   131 HLRSVAEEDGQTLAETEGLSFLETSALEATNVEKAFQTVLAEIYHIISKKALAAQEAAAA 190

Query:   195 LSL---NRVTLVKSETDGSKQTSGYFSCCS 221
              S       T+   +T G+    G   CCS
Sbjct:   191 NSAIPGQGTTINVEDTSGA----GKRGCCS 216

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2159285 RABA1f "RAB GTPase homolog A1F" [Arabidopsis thaliana (taxid:3702)]

 Score = 603 (217.3 bits), Expect = 9.3e-59, P = 9.3e-59
 Identities = 121/207 (58%), Positives = 150/207 (72%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFK+V+IGDS VGKSNLLSR+ RNEF+  SK+TIGVEF T+S+ +D K VKAQIWDTAG
Sbjct:    12 YLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSIHVDDKIVKAQIWDTAG 71

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QER+RA+TSAYYRGAVGAL+VYD+TR  TF+++ RWL EL+ H+D  +  M VGNK DL 
Sbjct:    72 QERYRAITSAYYRGAVGALLVYDVTRHVTFENVERWLKELRDHTDANIVIMFVGNKADLR 131

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
              +R VSTE+ K+ AE E  FFMETSAL+S NV++AF  V+ +IY  VSRK L+     A 
Sbjct:   132 HLRAVSTEDAKAFAERENTFFMETSALESMNVENAFTEVLSQIYRVVSRKALDIGDDPAA 191

Query:   195 LSLNRVTLVKSETDGSKQTSGYFSCCS 221
             L   +   V S+ D S        CCS
Sbjct:   192 LPKGQTINVGSKDDVSAVKK--VGCCS 216

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005829 "cytosol" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

ZFIN|ZDB-GENE-041114-53 rab11a "RAB11a, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 603 (217.3 bits), Expect = 9.3e-59, P = 9.3e-59
 Identities = 118/207 (57%), Positives = 156/207 (75%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK VKAQIWDTAG
Sbjct:    10 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTVKAQIWDTAG 69

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL 
Sbjct:    70 QERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 129

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
              +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY  VS+K + SD    +
Sbjct:   130 HLRAVPTDEARAFAEKNGLSFLETSALDSTNVETAFQTILTEIYRIVSQKQM-SDRRDND 188

Query:   195 LS-LNRVTLVKSETDGSKQTSGYFSCC 220
             +S  N V  ++ +   +K       CC
Sbjct:   189 MSPSNNVVSIQVQPTENKPK---MQCC 212

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0001525 "angiogenesis" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

GO:0070121 "Kupffer's vesicle development" evidence=IMP

GO:0032402 "melanosome transport" evidence=IMP

TAIR|locus:2015576 RABA1b "RAB GTPase homolog A1B" [Arabidopsis thaliana (taxid:3702)]

 Score = 602 (217.0 bits), Expect = 1.2e-58, P = 1.2e-58
 Identities = 119/208 (57%), Positives = 153/208 (73%)

Query:    15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             YLFK+V+IGDS VGKSNLLSR+ +NEFN  SK+TIGVEF T+++++DGK VKAQIWDTAG
Sbjct:    12 YLFKVVLIGDSGVGKSNLLSRFTKNEFNLESKSTIGVEFATRTLKVDGKVVKAQIWDTAG 71

Query:    75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
             QER+RA+TSAYYRGAVGAL+VYD+TRR TF+++ RWL ELK H+D  +  MLVGNK DL 
Sbjct:    72 QERYRAITSAYYRGAVGALLVYDVTRRATFENVDRWLKELKNHTDPNIVVMLVGNKSDLR 131

Query:   135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNS-DSYKA 193
              +  V TE+GKS AE E L FMETSAL++TNV+ AF  V+ +IY   S+K + + +   A
Sbjct:   132 HLLAVPTEDGKSYAEQESLCFMETSALEATNVEDAFAEVLTQIYRITSKKQVEAGEDGNA 191

Query:   194 ELSLNRVTLVKSETDGSKQTSGYFSCCS 221
              +       VK++    K+      CCS
Sbjct:   192 SVPKGEKIEVKNDVSALKK----LGCCS 215

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA;ISS;IDA

GO:0005622 "intracellular" evidence=IEA

GO:0005802 "trans-Golgi network" evidence=NAS

GO:0016020 "membrane" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=TAS

GO:0005773 "vacuole" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q40522	RB11D_TOBAC	No assigned EC number	0.5645	0.9369	0.9369	N/A	no
Q40520	RB11C_TOBAC	No assigned EC number	0.5598	0.9369	0.9369	N/A	no
Q5R9M7	RB11A_PONAB	No assigned EC number	0.5555	0.9234	0.9490	yes	no
P19892	RAA5E_ARATH	No assigned EC number	0.8190	0.9729	0.9908	no	no
Q40521	RB11B_TOBAC	No assigned EC number	0.5865	0.9234	0.9447	N/A	no
Q40191	RB11A_LOTJA	No assigned EC number	0.6363	0.8198	0.8053	N/A	no
Q40194	RB11D_LOTJA	No assigned EC number	0.5639	0.9189	0.9357	N/A	no
Q40193	RB11C_LOTJA	No assigned EC number	0.5523	0.9189	0.9444	N/A	no
P28187	RAA5C_ARATH	No assigned EC number	0.8198	0.9639	1.0	yes	no
Q9SIP0	RAA5D_ARATH	No assigned EC number	0.8288	0.9729	0.9863	no	no
P62491	RB11A_HUMAN	No assigned EC number	0.5555	0.9234	0.9490	yes	no
Q9SRS5	RAA5B_ARATH	No assigned EC number	0.7819	0.9459	0.9677	no	no
P17610	YPT3_SCHPO	No assigned EC number	0.6127	0.7792	0.8084	yes	no
Q01111	YPT3_NICPL	No assigned EC number	0.5592	0.9189	0.9357	N/A	no
Q5ZJN2	RB11A_CHICK	No assigned EC number	0.5555	0.9234	0.9490	yes	no
P22129	RB11B_DIPOM	No assigned EC number	0.5741	0.9234	0.9403	N/A	no
Q3MHP2	RB11B_BOVIN	No assigned EC number	0.5645	0.9234	0.9403	yes	no
Q39572	YPTC6_CHLRE	No assigned EC number	0.5761	0.9234	0.9490	N/A	no
Q52NJ1	RB11A_PIG	No assigned EC number	0.5555	0.9234	0.9490	yes	no
Q39434	RB2BV_BETVU	No assigned EC number	0.5480	0.9189	0.9532	N/A	no
P62490	RB11A_CANFA	No assigned EC number	0.5555	0.9234	0.9490	yes	no
P62493	RB11A_RABIT	No assigned EC number	0.5555	0.9234	0.9490	yes	no
P62492	RB11A_MOUSE	No assigned EC number	0.5555	0.9234	0.9490	yes	no
P62494	RB11A_RAT	No assigned EC number	0.5555	0.9234	0.9490	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: grail3.0034015701 hypothetical protein (218 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	222
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-108
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-100
pfam00071	162	pfam00071, Ras, Ras family	3e-87
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	2e-85
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	7e-85
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	9e-74
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	1e-73
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	2e-71
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	4e-69
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	5e-64
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	9e-64
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-63
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-63
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	2e-60
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	9e-60
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	3e-57
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	1e-53
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	2e-52
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	1e-51
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	3e-51
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	9e-50
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	1e-49
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	2e-47
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	1e-46
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-46
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	8e-46
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	5e-45
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-44
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	7e-44
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	9e-43
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	1e-41
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	4e-41
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	2e-40
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-39
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	9e-37
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	3e-36
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	3e-34
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	3e-34
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	1e-32
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	6e-32
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	9e-32
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	1e-31
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-31
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	5e-31
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	6e-31
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	1e-29
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	1e-29
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-29
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	5e-29
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	8e-29
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	9e-29
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	3e-28
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	4e-28
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	2e-27
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	3e-27
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	5e-27
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	2e-26
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	3e-25
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	6e-25
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	3e-24
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	7e-24
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-22
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	4e-22
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-21
pfam08477	116	pfam08477, Miro, Miro-like protein	4e-21
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	6e-21
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	3e-20
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	4e-20
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	2e-19
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	2e-18
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	3e-18
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	5e-18
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	6e-18
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	1e-17
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-17
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	3e-17
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	7e-17
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	2e-16
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	3e-16
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	9e-15
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	9e-13
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	1e-12
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	2e-12
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	2e-11
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	1e-10
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	5e-10
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	6e-10
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	7e-10
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	2e-09
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	3e-07
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	4e-07
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	9e-07
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	1e-06
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	1e-06
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	2e-06
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	7e-06
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	1e-05
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	3e-05
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	4e-05
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	6e-05
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	1e-04
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	2e-04
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	2e-04
COG0486	454	COG0486, ThdF, Predicted GTPase [General function	4e-04
cd01897	167	cd01897, NOG, Nucleolar GTP-binding protein (NOG)	4e-04
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	5e-04
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	0.002

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score =  307 bits (789), Expect = e-108
 Identities = 110/165 (66%), Positives = 139/165 (84%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFKIV+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T++++IDGK +KAQIWDTA
Sbjct: 1   DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTA 60

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+RA+TSAYYRGAVGAL+VYDIT+++TF+++ RWL EL+ H+D+ +  MLVGNK DL
Sbjct: 61  GQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDL 120

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
             +R V TEE K+ AE  GL F+ETSALD TNV+ AF+ ++ EIY
Sbjct: 121 RHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEIY 165

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-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. Length = 165

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  286 bits (734), Expect = e-100
 Identities = 96/164 (58%), Positives = 125/164 (76%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FKI++IGDS VGKS+LLSR+   +F+   K+TIGV+F+T+++E+DGK VK QIWDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++TS+YYRGAVGAL+VYDIT R +F+++  WL EL+ ++   V  MLVGNK DLE  
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQ 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R VS EE ++ AE  GL F ETSA  +TNV+ AFE + REI   
Sbjct: 121 RQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score =  254 bits (651), Expect = 3e-87
 Identities = 92/161 (57%), Positives = 121/161 (75%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD  VGKS+LL R+ +N+F      TIGV+F T+++E+DGK VK QIWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           FRA+   YYRGA G L+VYDIT R +F+++ +WL+E+  H+D  V  +LVGNKCDLE  R
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQR 120

Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            VSTEEG++LA+  GL FMETSA  + NV+ AFE + REI 
Sbjct: 121 VVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREIL 161

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  252 bits (644), Expect = 2e-85
 Identities = 116/208 (55%), Positives = 155/208 (74%), Gaps = 2/208 (0%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFKIV+IGDS VGKSN+LSR+ RNEF   SK+TIGVEF T++++++GK VKAQIWDTA
Sbjct: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+RA+TSAYYRGAVGAL+VYDIT+R TFD++ RWL EL+ H+D+ +  M+ GNK DL
Sbjct: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDL 129

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
             +R+V+ E+G++LAE EGL F+ETSAL++TNV+ AF+ ++ EIY  +S+K L +    A
Sbjct: 130 NHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISKKALAAQEAAA 189

Query: 194 ELSLNRVTLVKSETDGSKQTSGYFSCCS 221
              L       +  D S        CCS
Sbjct: 190 NSGLPGQGTTINVADTSGNNKR--GCCS 215

Length = 216

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score =  248 bits (636), Expect = 7e-85
 Identities = 88/159 (55%), Positives = 123/159 (77%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FKIV+IGDS VGK++LL R+  N+F+ + K+TIGV+F+++++E+DGK+VK QIWDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++TS+YYRGA GA++VYD+T R +F+++ +WL+ELK ++   +  +LVGNK DLE  
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDE 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR 175
           R VSTEE +  A+  GL F ETSA    NV  AFE + R
Sbjct: 121 RQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLAR 159

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 dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. 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. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  220 bits (562), Expect = 9e-74
 Identities = 92/167 (55%), Positives = 120/167 (71%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
            YLFK +IIGD+ VGKS LL ++    F P    TIGVEF  + + IDGK++K QIWDTA
Sbjct: 2   AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTA 61

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQE FR++T +YYRGA GAL+VYDITRR TF+ ++ WL++ + HS++ +  ML+GNKCDL
Sbjct: 62  GQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDL 121

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           ES R VS EEG++ A   GL FMETSA  ++NV+ AF    +EIY  
Sbjct: 122 ESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYDK 168

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 feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 168

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score =  220 bits (563), Expect = 1e-73
 Identities = 85/164 (51%), Positives = 124/164 (75%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+++IGDS VGKS LL R++ + FNP   +TIG++F+ +++E+DGK++K QIWDTA
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTA 60

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +T++YYRGA+G ++VYDIT   +F++I  W+  +  H+   V RMLVGNKCD+
Sbjct: 61  GQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDM 120

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           E  R VS EEG++LA   G+ F+ETSA  + NV+ AF  + ++I
Sbjct: 121 EEKRVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDI 164

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 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. Length = 167

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score =  214 bits (547), Expect = 2e-71
 Identities = 76/162 (46%), Positives = 108/162 (66%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GDS+VGKS+++ R+ +NEF+ + ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 2   FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQE 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+R++   YYRGA  A++VYDIT   +F+    W+ EL+ H    +   L GNK DLES 
Sbjct: 62  RYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESK 121

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
           R VSTEE +  A+  GL FMETSA    NV   F  + R++ 
Sbjct: 122 RQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARKLP 163

The Rab5-related 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 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. Length = 163

>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog Ypt1

 Score =  208 bits (532), Expect = 4e-69
 Identities = 83/163 (50%), Positives = 119/163 (73%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK VK QIWDTAG
Sbjct: 1   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAG 60

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G +IVYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL 
Sbjct: 61  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 120

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             + V   E K  A+  G+ F+ETSA ++TNV+ AF  + REI
Sbjct: 121 DKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREI 163

Rab1/Ypt1 subfamily. 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  197 bits (502), Expect = 5e-64
 Identities = 95/208 (45%), Positives = 130/208 (62%), Gaps = 4/208 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK +IIGD+ VGKS LL ++    F P    TIGVEF  + + ID K +K QIWDTAG
Sbjct: 5   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAG 64

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QE FR++T +YYRGA GAL+VYDITRR TF+ ++ WL++ + H++  +  ML+GNKCDL 
Sbjct: 65  QESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLA 124

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKV--LNSDSYK 192
             R VSTEEG+  A+  GL FME SA  + NV+ AF     +IY  +   V  ++++SY 
Sbjct: 125 HRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNESYG 184

Query: 193 AELSLNRVTLVKSETDGSKQTSGYFSCC 220
            ++    +       DG+    G   CC
Sbjct: 185 IKVGYGAIPGASGGRDGTSSQGG--GCC 210

Length = 210

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  195 bits (496), Expect = 9e-64
 Identities = 84/166 (50%), Positives = 115/166 (69%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FK +IIGD  VGKS LL ++   +F      TIGVEF T+ +E++G+++K QIWDTAG
Sbjct: 1   YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAG 60

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFRAVT +YYRGA GAL+VYDITRR+T++ +S WL + +  ++      L+GNK DLE
Sbjct: 61  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE 120

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           + R+V+ EE K  A+  GL F+E SA    NV+ AF    ++IY N
Sbjct: 121 AQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQN 166

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 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. Length = 166

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  194 bits (495), Expect = 1e-63
 Identities = 82/162 (50%), Positives = 115/162 (70%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            KI++IGDS VGKS+LL R+  + F+    +TIGV+F+ +++ +DGK+VK  IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
           RFR +TS+YYRGA G ++VYD+TRR TFD++  WL+EL T+S      +MLVGNK D E+
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKEN 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V+ EEG+  A    + F+ETSA     V+ AFE ++ +I
Sbjct: 121 -REVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 161

Rab18 subfamily. 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 most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  193 bits (493), Expect = 3e-63
 Identities = 81/165 (49%), Positives = 118/165 (71%), Gaps = 1/165 (0%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFKI++IGDS VGK+ ++ R+    F+     TIGV+F  +++EI GK VK QIWDTA
Sbjct: 1   DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTA 60

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +T +YYR A GA+I YDITRR++F+S+  W++E++ +  + V  +L+GNKCDL
Sbjct: 61  GQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDL 120

Query: 134 ESIRNVSTEEGKSLAEAEGLFF-METSALDSTNVKSAFEIVIREI 177
           E  R V  EE  +LAE  G+   +ETSA +S+NV+ AF ++  E+
Sbjct: 121 EEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 165

Rab19 subfamily. 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 characterized. 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. Length = 165

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  186 bits (475), Expect = 2e-60
 Identities = 67/161 (41%), Positives = 108/161 (67%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+V +GD +VGK+++++R+  + F+   +ATIG++F +++M +D K V+ Q+WDTAGQE
Sbjct: 1   HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT R +FD+  +W+D+++      V  +LVGNK DL   
Sbjct: 61  RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R VSTEEG+  A+     F+ETSA    NVK  F+ + + +
Sbjct: 121 RQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 161

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  186 bits (474), Expect = 9e-60
 Identities = 80/171 (46%), Positives = 118/171 (69%), Gaps = 2/171 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTA 73
           Y F++++IGDS VGKS+LL R+    F   S  T+GV+F ++ +EI  G  +K Q+WDTA
Sbjct: 1   YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTA 60

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCD 132
           GQERFR++T +YYR +VG L+V+DIT R +F+ +  WL+E ++H        +LVG+KCD
Sbjct: 61  GQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCD 120

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
           LES R V+ EE + LA+  G+ ++ETSA    NV+ AFE++ +EIY  + R
Sbjct: 121 LESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKR 171

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. Length = 211

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  178 bits (453), Expect = 3e-57
 Identities = 81/161 (50%), Positives = 107/161 (66%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK +IIG +  GKS LL ++  N+F   S  TIGVEF ++ + + GK VK QIWDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR+VT +YYRGA GAL+VYDIT R +F++++ WL + +T +   +  +LVGNK DLE  
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDD 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V+  E    A+  GL F+ETSAL   NV+ AF    R I
Sbjct: 121 REVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARSI 161

Rab4 subfamily. 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 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. Length = 161

>gnl|CDD|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score =  169 bits (429), Expect = 1e-53
 Identities = 72/156 (46%), Positives = 110/156 (70%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           +FK++IIG+S+VGK++ L RYA + F     +T+G++F+ +++  + K +K QIWDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ER+R +T+AYYRGA+G +++YDIT   +F+++  W  ++KT+S      +LVGNKCD+E 
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMED 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
            R VS E G+ LA+  G  F E SA ++ NVK  FE
Sbjct: 121 ERVVSAERGRQLADQLGFEFFEASAKENINVKQVFE 156

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. 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. Length = 165

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  166 bits (422), Expect = 2e-52
 Identities = 69/164 (42%), Positives = 111/164 (67%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFKIV+IG++ VGK+ L+ R+ +  F P   ATIGV+F  +++EI G+++K QIWDTA
Sbjct: 5   DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTA 64

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR++T +YYR A   ++ YDIT   +F  +  WL E++ +++  V  +LVGNK DL
Sbjct: 65  GQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDL 124

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
              R VS +  +  ++A+ ++++ETSA +S NV+  F  +   +
Sbjct: 125 AERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168

Rab30 subfamily. 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. Length = 169

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  165 bits (419), Expect = 1e-51
 Identities = 81/198 (40%), Positives = 121/198 (61%), Gaps = 4/198 (2%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFK++IIGDS VGKS+LL R+A N F+     TIGV+F+ +++EI+G+ VK QIWDTA
Sbjct: 4   DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTA 63

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +TS YYRG  G ++VYD+T   +F ++ RWL E++ + D  V ++LVGNK D 
Sbjct: 64  GQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKNDD 122

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
              + V TE+    A   G+   ETSA ++ NV+  F  +   +   +  K  N    + 
Sbjct: 123 PERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELV---LRAKKDNLAKQQQ 179

Query: 194 ELSLNRVTLVKSETDGSK 211
           +   + V L K+     +
Sbjct: 180 QQQNDVVKLPKNSKRKKR 197

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 essential for membrane attachment, a key feature of most Rab proteins. Length = 199

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  162 bits (413), Expect = 3e-51
 Identities = 62/155 (40%), Positives = 93/155 (60%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+  VGK++L+ RY  N+FN   ++T    F  +++ I GK +   IWDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ A+   YYR A GA++VYDIT   +F  + +W+ ELK      ++ ++VGNK DLE  
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQ 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
           R VS  E +  A++ G    ETSA     ++  F 
Sbjct: 121 RVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFL 155

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate 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 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. Length = 162

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score =  160 bits (406), Expect = 9e-50
 Identities = 76/162 (46%), Positives = 110/162 (67%), Gaps = 1/162 (0%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           FK++++GDS VGK+ LL R+    F   S  AT+G++F  + + +DG +VK QIWDTAGQ
Sbjct: 1   FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQ 60

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ERFR+VT AYYR A   L++YD+T +++FD+I  WL E+  ++ + V  ML+GNK D+  
Sbjct: 61  ERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSG 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G+ LA+  G+ FMETSA    NV+ AF  V +E+
Sbjct: 121 ERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKEL 162

Rab26 subfamily. 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. Length = 191

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  159 bits (405), Expect = 1e-49
 Identities = 66/164 (40%), Positives = 106/164 (64%), Gaps = 5/164 (3%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K++I+GDS VGK++L+++Y   +F+   KATIG +F T+ + +D + V  QIWDTAGQE
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR----MLVGNKCD 132
           RF+++  A+YRGA   ++VYD+T   +F+S+  W DE    +          +++GNK D
Sbjct: 61  RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKID 120

Query: 133 LESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIR 175
           LE  R VST++ +   +++G + + ETSA ++ NV  AFE + R
Sbjct: 121 LEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIAR 164

Rab7 subfamily. 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-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. Length = 172

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score =  153 bits (389), Expect = 2e-47
 Identities = 69/159 (43%), Positives = 101/159 (63%), Gaps = 5/159 (3%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FKI++IGDS VGK+ L  R+    F   ++ATIGV+F+ +++EIDG+ +K Q+WDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62

Query: 77  RFR-AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLE 134
           RFR ++   YYR     + VYD+T   +F S+  W++E + HS    V R+LVGNKCDL 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR 122

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALD---STNVKSAF 170
               V T+  +  A+A  +   ETSA D   + +V++ F
Sbjct: 123 EQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIF 161

Rab33B/Rab33A subfamily. 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 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. Length = 170

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  151 bits (383), Expect = 1e-46
 Identities = 67/154 (43%), Positives = 105/154 (68%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           F++++IGDS VGK+ LL R+  NEF+    +TIGV+F+ +++E+DG +V+ QIWDTAGQE
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R++ +T  YYR A G  +VYDI+   ++  I +W+ ++  ++   V ++L+GNK D E  
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQK 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
           R V  E+G  LA+  G+ F ETSA  + N+K +F
Sbjct: 121 RQVGDEQGNKLAKEYGMDFFETSACTNKNIKESF 154

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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score =  152 bits (385), Expect = 2e-46
 Identities = 75/211 (35%), Positives = 118/211 (55%), Gaps = 17/211 (8%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQ 75
           FK+++IGD  VGK++++ RY    F+ H KATIGV+F  + +E D    V+ Q+WD AGQ
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL----KTHSDTTVARMLVGNKC 131
           ERF  +T  YY+GAVGA+IV+D+TR +TF+++ +W  +L       +   +  +L+ NKC
Sbjct: 61  ERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKC 120

Query: 132 DLESIRN-VSTEE-GKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSD 189
           DL+  R     E+  +   E   + + ETSA ++ N++ A   +++ I  N      +  
Sbjct: 121 DLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKN------DKG 174

Query: 190 SYKAELSLNRVTLVKSETDGSKQTSGYFSCC 220
               E   + V  +K ET     TS   SCC
Sbjct: 175 LQSPEPDEDNVIDLKQET----TTSKSKSCC 201

Rab38/Rab32 subfamily. 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. Length = 201

>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases)

 Score =  149 bits (378), Expect = 8e-46
 Identities = 67/161 (41%), Positives = 93/161 (57%), Gaps = 2/161 (1%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++G   VGKS L  R+   EF      TI   ++ Q + +DG+     I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIEDSYRKQ-IVVDGETYTLDILDTAGQEE 59

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLESI 136
           F A+   Y R   G ++VY IT R +F+ I    ++ L+      V  +LVGNKCDLE+ 
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE 119

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R VSTEEG++LAE  G  F+ETSA  + N+   F  ++REI
Sbjct: 120 RQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLVREI 160

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras 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 Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 160

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  149 bits (376), Expect = 5e-45
 Identities = 82/173 (47%), Positives = 112/173 (64%), Gaps = 5/173 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           M SS   G   G +  FKI++IGDS VGKS+LL  +  +     +  TIGV+F+ + + +
Sbjct: 1   MGSS--SGQSSGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLA-PTIGVDFKIKQLTV 57

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISR-WLDELKTHS- 118
            GK +K  IWDTAGQERFR +TS+YYR A G ++VYD+TRR TF ++S  W  E++ +S 
Sbjct: 58  GGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYST 117

Query: 119 DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
           +    +MLVGNK D ES R+VS EEG +LA+  G  F+E SA    NV+  FE
Sbjct: 118 NQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFE 170

Length = 211

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  146 bits (370), Expect = 2e-44
 Identities = 69/181 (38%), Positives = 118/181 (65%), Gaps = 1/181 (0%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +++IIG   VGK++L+ R+  + F    K+T+GV+F+ +++E+ GK+++ QIWDTAGQER
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           F ++TSAYYR A G ++VYDIT++ TFD + +W+  +  ++      +LVGNK D E+ R
Sbjct: 62  FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR 121

Query: 138 NVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELS 196
            ++ ++G+  A +  G+ F E SA D+ NV   F  ++ +I   +   +L ++   + LS
Sbjct: 122 EITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPLDILRNELSNSILS 181

Query: 197 L 197
           L
Sbjct: 182 L 182

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. 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. 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. Length = 202

>gnl|CDD|206700 cd04127, Rab27A, Rab GTPase family 27a (Rab27a)

 Score =  144 bits (366), Expect = 7e-44
 Identities = 66/172 (38%), Positives = 105/172 (61%), Gaps = 11/172 (6%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQ-----SMEIDG-----K 63
           +YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ +     S   DG      
Sbjct: 2   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAF 61

Query: 64  EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA 123
            V  Q+WDTAGQERFR++T+A++R A+G L+++D+T   +F ++  W+ +L+ H+     
Sbjct: 62  RVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENP 121

Query: 124 RM-LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
            + L+GNK DL   R VS  + + LA+  G+ + ETSA    NV+ A E ++
Sbjct: 122 DIVLIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLL 173

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 insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. 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. Length = 180

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  141 bits (358), Expect = 9e-43
 Identities = 68/171 (39%), Positives = 106/171 (61%), Gaps = 6/171 (3%)

Query: 12  GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD 71
           G+  L K++++GD  VGKS+L++RY  N+F+     TIGVEF  + +E+DG  V  QIWD
Sbjct: 1   GKSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWD 60

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR----MLV 127
           TAGQERFR++ + +YRG+   L+ + +    +F ++S W  E   ++D         +++
Sbjct: 61  TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 120

Query: 128 GNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
           GNK D+   R VSTEE ++     G + + ETSA D+TNV +AFE  +R +
Sbjct: 121 GNKIDIPE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 170

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, 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. Length = 170

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score =  140 bits (354), Expect = 1e-41
 Identities = 68/193 (35%), Positives = 99/193 (51%), Gaps = 18/193 (9%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
              FKIV++GD  VGK+ LL+R   +EF      TIG     +++E   + +K Q+WDTA
Sbjct: 3   MKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTA 62

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCD 132
           GQE +R++   YYRGA G LIVYD T R  + +    WL+EL+  +   V  +LVGNK D
Sbjct: 63  GQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKID 122

Query: 133 LESIRNVSTEEGKSLA---------------EAEGLFFMETSALDST--NVKSAFEIVIR 175
           L   ++ S E    L                E      +ETSA   T  NV   F+ ++R
Sbjct: 123 LFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLR 182

Query: 176 EIYSNVSRKVLNS 188
           ++   + + VL +
Sbjct: 183 KLLEEIEKLVLKN 195

Length = 219

>gnl|CDD|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  137 bits (347), Expect = 4e-41
 Identities = 71/162 (43%), Positives = 96/162 (59%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI   ++ Q +EIDG+     I DTAGQE
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIEDSYRKQ-IEIDGEVCLLDILDTAGQE 59

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
            F A+   Y R   G L+VY IT R +F+ I ++ ++ L+      V  +LVGNKCDLES
Sbjct: 60  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLES 119

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R VSTEEGK LA   G  F+ETSA +  NV  AF  ++REI
Sbjct: 120 ERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREI 161

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. Length = 164

>gnl|CDD|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  135 bits (343), Expect = 2e-40
 Identities = 69/162 (42%), Positives = 96/162 (59%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI  +   + +EIDG+     I DTAGQE
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
            F A+   Y R   G L+VY IT R +F+ I+++ ++ L+      V  +LVGNKCDLE+
Sbjct: 62  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLEN 121

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R VSTEEGK LA   G  F+ETSA +  NV  AF  ++REI
Sbjct: 122 ERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREI 163

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily. Length = 166

>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score =  132 bits (335), Expect = 2e-39
 Identities = 56/160 (35%), Positives = 80/160 (50%), Gaps = 4/160 (2%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
            KIVI+GD  VGKS LL+R   N+ +    K      + T  +E DGK  K  + DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRR--TTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           E + A+   YYR    +L V+DI        + + +   E+  H+++ V  +LVGNK DL
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDL 121

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV 173
                + T      A+  G   +  SA    N+ SAF+IV
Sbjct: 122 RD-AKLKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV 160

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model [Unknown function, General]. Length = 162

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score =  126 bits (319), Expect = 9e-37
 Identities = 61/157 (38%), Positives = 97/157 (61%), Gaps = 1/157 (0%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YL K +++GDS VGK  +L+              +G++++T ++ +DG+ VK Q+WDT+
Sbjct: 4   DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTS 63

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQ RF  +  +Y RGA G ++VYDIT R +FD I RW+ E+  H+   V ++LVGN+  L
Sbjct: 64  GQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHL 122

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
              R V+TE+ ++ AE  G+ F E S L + N+  +F
Sbjct: 123 AFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESF 159

The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for 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. 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. Length = 189

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score =  125 bits (315), Expect = 3e-36
 Identities = 51/165 (30%), Positives = 87/165 (52%), Gaps = 5/165 (3%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++ +G+S VGKS ++ RY    F      TIG+++  + + +  KEV+   +D +G   
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-----TVARMLVGNKCD 132
           +  V + +Y+   G L+VYD+T R +F+++  WL E+K           +  ++  NK D
Sbjct: 62  YLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKID 121

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           L   R VS +EG+  AE++G  + ETSA     V   F+ +   I
Sbjct: 122 LTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSI 166

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. Length = 168

>gnl|CDD|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score =  119 bits (300), Expect = 3e-34
 Identities = 55/159 (34%), Positives = 94/159 (59%), Gaps = 4/159 (2%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI+++GDSAVGKS L+ R+  + + P   +T  +     + + +GK +    WDTAGQER
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQER 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           F+ + ++YY  A   ++V+D+TR+ T+ ++S+W +EL+ +    +  ++V NK DL+   
Sbjct: 62  FQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRP-EIPCIVVANKIDLDP-- 118

Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
           +V T++  + AE   L     SA D TNV   F+  I+ 
Sbjct: 119 SV-TQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKL 156

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain 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. Length = 161

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  119 bits (301), Expect = 3e-34
 Identities = 56/158 (35%), Positives = 88/158 (55%), Gaps = 7/158 (4%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID--GKEVKAQIWDTAGQ 75
           K++++G+  VGKS+++ R+ +  F    K TIGV+F  + + +    ++V+  +WDTAGQ
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLD--ELKTHSDTTVARMLVGNKCDL 133
           E F A+T AYYRGA   ++V+  T R +F++I  W +  E +      V   LV  K DL
Sbjct: 62  EEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMV---LVQTKIDL 118

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
                ++ EE ++LA+   L    TS  D  NV   FE
Sbjct: 119 LDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFE 156

Rab23-like subfamily. 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) signaling 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 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. Length = 162

>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score =  115 bits (290), Expect = 1e-32
 Identities = 61/162 (37%), Positives = 91/162 (56%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ ++ F      TI   + T+  EIDG+  +  I DTAGQE
Sbjct: 3   YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWARLDILDTAGQE 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
            F A+   Y R   G L+V+ +T R +F+ + ++  + L+         +LVGNK DLE 
Sbjct: 62  EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEH 121

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R VS EEG+ LA    + ++ETSA D  NV  AF  ++R I
Sbjct: 122 QRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDLVRVI 163

The M-Ras/R-Ras-like 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 aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score =  114 bits (286), Expect = 6e-32
 Identities = 59/156 (37%), Positives = 94/156 (60%), Gaps = 3/156 (1%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++++GD +VGK+ L++R+ ++ F+ + KATIGV+F+ +  E+ G     Q+WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWL-DELKTHSDTTVARMLVGNKCDLESI 136
           F+ + S YYRGA   +IV+D+T   + +   +WL D LK +  ++V   LVG K DL S 
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSP 121

Query: 137 RNVSTEEGKSLAEAEGLF--FMETSALDSTNVKSAF 170
              +  E  ++  A  +   +   SAL   NV+  F
Sbjct: 122 AQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFF 157

Rab34/Rab36 subfamily. 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 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. Length = 170

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score =  113 bits (285), Expect = 9e-32
 Identities = 54/171 (31%), Positives = 91/171 (53%), Gaps = 15/171 (8%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GD AVGK+ LL  Y  N+F      T+  +  + ++ +DGK+V   +WDTAGQE 
Sbjct: 2   KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEE 60

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++ ++W  E+K +    V  +LVG K DL   
Sbjct: 61  YDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYC-PNVPIILVGTKIDLRDD 119

Query: 134 -ESIRN-------VSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
             +++        ++ EEG+ LA+  G   +ME SAL    +K  F+  IR
Sbjct: 120 GNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEAIR 170

Members of the Rho (Ras homology) 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 proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

>gnl|CDD|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score =  113 bits (285), Expect = 1e-31
 Identities = 70/175 (40%), Positives = 99/175 (56%), Gaps = 7/175 (4%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +N F      TI   ++ Q   ID +     I DTAGQE
Sbjct: 6   YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQ-CVIDEETCLLDILDTAGQE 64

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
            + A+   Y R   G L VY IT R++F+ I+ + ++ L+      V  +LVGNKCDL+S
Sbjct: 65  EYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDS 124

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDS 190
            R VST EG+ LA++ G+ F+ETSA    NV  AF  ++REI     RK L  D 
Sbjct: 125 ERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREI-----RKYLKEDM 174

Length = 189

>gnl|CDD|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score =  112 bits (282), Expect = 2e-31
 Identities = 62/162 (38%), Positives = 94/162 (58%), Gaps = 3/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 2   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVIDGETCLLDILDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I  R +F+ I  + +++K   D+  V  +LVGNKCDL +
Sbjct: 61  EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R VST +G+ LA++ G+ ++ETSA     V+ AF  ++REI
Sbjct: 121 -RTVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI 161

H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF and NORE/MST1. Most Ras 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 Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score =  111 bits (280), Expect = 5e-31
 Identities = 54/173 (31%), Positives = 89/173 (51%), Gaps = 20/173 (11%)

Query: 19  IVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +V++GD AVGK+ LL  Y  N F P     T+   + +  +E+DGK V+  +WDTAGQE 
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAF-PEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQED 58

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHS-DTTVARMLVGNKCDLES 135
           +  +    Y      LI + +    +F+++  +W  E+K    +  +  +LVG K DL +
Sbjct: 59  YDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNVPI--ILVGTKLDLRN 116

Query: 136 IRN------------VSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
            ++            V+ E+G++LA+  G   ++E SAL    V+  FE  IR
Sbjct: 117 DKSTLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFEEAIR 169

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms. Length = 174

>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score =  111 bits (280), Expect = 6e-31
 Identities = 61/161 (37%), Positives = 92/161 (57%), Gaps = 2/161 (1%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI ++G  +VGKS+L  ++    F      TI   F ++ +   G+E   +I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDE 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLESI 136
           +  +   Y  G  G ++VY +T R +F+ +    D+ L      +V  +LVGNK DL   
Sbjct: 62  YSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHME 121

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R VS EEGK LAE+ G  F+E+SA ++ NV+ AFE++I EI
Sbjct: 122 RQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEI 162

Rheb (Ras Homolog Enriched in Brain) subfamily. 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 leads to cell growth and cell-cycle progression. Most Ras 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 Ras proteins. Length = 180

>gnl|CDD|206710 cd04139, RalA_RalB, Ral (Ras-like) family containing highly homologous RalA and RalB

 Score =  107 bits (270), Expect = 1e-29
 Identities = 61/164 (37%), Positives = 96/164 (58%), Gaps = 2/164 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAGQE
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQLNILDTAGQE 59

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
            + A+   Y+R   G L+V+ IT   +F +++ + ++ L+   D  V  +LVGNKCDLE 
Sbjct: 60  DYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLED 119

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
            R VS EE  +LAE  G+ ++ETSA    NV   F  ++REI  
Sbjct: 120 KRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREIRQ 163

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 exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras 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 Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|133375 cd04175, Rap1, Rap1 family GTPase consists of Rap1a and Rap1b isoforms

 Score =  107 bits (270), Expect = 1e-29
 Identities = 60/162 (37%), Positives = 94/162 (58%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI   ++ Q +E+DG++   +I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVDGQQCMLEILDTAGTE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
           +F A+   Y +   G ++VY IT ++TF+ +    +++    DT  V  +LVGNKCDLE 
Sbjct: 61  QFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G++LA   G  F+ETSA    NV   F  ++R+I
Sbjct: 121 ERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI 162

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. Most Ras 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 Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score =  108 bits (271), Expect = 2e-29
 Identities = 61/163 (37%), Positives = 93/163 (57%), Gaps = 4/163 (2%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD  VGK+ L  +   N F      TI   ++ Q + +DG+    ++ DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVV-VDGQPCMLEVLDTAGQEE 59

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL---KTHSDTTVARMLVGNKCDLE 134
           + A+   + R   G ++VY IT R+TF+ + R+ +++   K  S   V  M+VGNKCD  
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VSTEEG +LA   G  F+E SA  + NV+ AF  ++R +
Sbjct: 120 YEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRAL 162

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras 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 Ras proteins. Length = 190

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  106 bits (266), Expect = 5e-29
 Identities = 51/133 (38%), Positives = 84/133 (63%)

Query: 39  NEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI 98
           + F+ + ++TIG++F ++++ +D   V+ Q+WDTAGQERFR++  +Y R +  A++VYDI
Sbjct: 3   DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDI 62

Query: 99  TRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMET 158
           T R +F++ ++W+ ++       V   LVGNK DL  +R V+ EEG   A+     F ET
Sbjct: 63  TNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHET 122

Query: 159 SALDSTNVKSAFE 171
           SA    N+K  F+
Sbjct: 123 SAKAGHNIKVLFK 135

Length = 176

>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score =  105 bits (264), Expect = 8e-29
 Identities = 61/163 (37%), Positives = 91/163 (55%), Gaps = 3/163 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +KIV++G   VGKS L  ++ +N F      TI   ++ Q +EIDG++   +I DTAG E
Sbjct: 2   YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRKQ-VEIDGRQCDLEILDTAGTE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
           +F A+   Y +   G L+VY +T   + + +    ++ L+      V  +LVGNK DLE 
Sbjct: 61  QFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLED 120

Query: 136 IRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
            R VS E+G SL++  G   F ETSA   TNV   F  ++R+I
Sbjct: 121 DRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQI 163

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras 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 Ras proteins. Length = 168

>gnl|CDD|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score =  105 bits (264), Expect = 9e-29
 Identities = 58/162 (35%), Positives = 88/162 (54%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++    F      TI  +F  + +E+D      +I DTAG E
Sbjct: 2   YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
           +F ++   Y +   G ++VY +  + TF  I    D+ ++      V  +LVGNK DLES
Sbjct: 61  QFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLES 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R VS+ EG++LAE  G  FMETSA   T V   F  ++R++
Sbjct: 121 EREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. Most Ras 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 Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score =  104 bits (261), Expect = 3e-28
 Identities = 62/175 (35%), Positives = 87/175 (49%), Gaps = 26/175 (14%)

Query: 18  KIVIIGDSAVGKSNLLSR---------YARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQ 68
           KI ++G S VGKS L  R         Y  N  + +S+             IDG++V  +
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLYSRQVT----------IDGEQVSLE 50

Query: 69  IWDTAGQERFRAV--TSAYYRGAVGALIVYDITRRTTFDSISRWL---DELKTHSDTTVA 123
           I DT GQ++           R A G ++VY IT R++FD +S+ L    E+K   D  + 
Sbjct: 51  IQDTPGQQQNEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKK-RDGEIP 109

Query: 124 RMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA-LDSTNVKSAFEIVIREI 177
            +LVGNK DL   R VSTEEG+ LA   G  F E SA  +   V++ F  + RE+
Sbjct: 110 VILVGNKADLLHSRQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCREV 164

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tumor suppressor activity. Length = 166

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score =  104 bits (261), Expect = 4e-28
 Identities = 63/208 (30%), Positives = 101/208 (48%), Gaps = 21/208 (10%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           K+V++G  +VGK++L+ RY  + F     + TIG  F  + M +  + V   IWDTAG E
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL--- 133
           R+ A++  YYRGA  A++ YD+T  ++F+    W+ EL  + +      L G K DL   
Sbjct: 62  RYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKEL-QNLEEHCKIYLCGTKSDLIEQ 120

Query: 134 -ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYK 192
             S+R V   + +  A+       ETS+    NV   F+ V  E + +            
Sbjct: 121 DRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVA-EDFVSR----------- 168

Query: 193 AELSLNRVTLVKSETDGSKQTSGYFSCC 220
              + N++   K    G K+ S ++SCC
Sbjct: 169 ---ANNQMNTEKGVDLGQKKNSYFYSCC 193

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 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. Length = 193

>gnl|CDD|206712 cd04141, Rit_Rin_Ric, Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric)

 Score =  102 bits (256), Expect = 2e-27
 Identities = 61/173 (35%), Positives = 89/173 (51%), Gaps = 6/173 (3%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +KIV++G   VGKS +  ++  + F  +   TI   ++TQ+  ID +     I DTAGQ 
Sbjct: 3   YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQAR-IDNEPALLDILDTAGQA 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRW---LDELKTHSDTTVARMLVGNKCDL 133
            F A+   Y R   G +I Y +T R +F   S +   +  ++   D  +  +LVGNK DL
Sbjct: 62  EFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPL--VLVGNKVDL 119

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVL 186
           E  R V+TEEG++LA      F ETSA     +  AF  ++REI    S   L
Sbjct: 120 EQQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIRRKESMPAL 172

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 signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

>gnl|CDD|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score =  101 bits (254), Expect = 3e-27
 Identities = 51/163 (31%), Positives = 86/163 (52%), Gaps = 5/163 (3%)

Query: 18  KIVIIGDSAVGKSNLLSRYARN--EFNPHSKATIGVEFQTQSMEI--DGKEVKAQIWDTA 73
           +  ++GD AVGKS L+  +  +   F  +   T G +   +++ +      V+  I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCD 132
           GQE F  +    +       +VYD+T   +F++ SRW++ ++THS       +LVGNKCD
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCD 121

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR 175
           L   R V   + ++LA+A  L F ETSA +    ++ F  + R
Sbjct: 122 LTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLAR 164

RabL4 (Rab-like4) subfamily. 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. Length = 167

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score =  102 bits (256), Expect = 5e-27
 Identities = 61/191 (31%), Positives = 94/191 (49%), Gaps = 13/191 (6%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK-EVKAQIWDTAGQ 75
            KIV++GD A GK++L+ R+A+  F    K TIG++F ++ + + G   V  Q+WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKT---HSDTTVARMLVGNKCD 132
           +    +   Y  GA    +VYDIT   +F+++  WL  +K     S+T    +LVGNK D
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYK 192
           LE  R V+ E+    A+   +  +  SA     V   F+ +  E+        L     +
Sbjct: 121 LEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAEL--------LGVKLSQ 172

Query: 193 AELSL-NRVTL 202
           AEL    RV  
Sbjct: 173 AELEQSQRVVK 183

Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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. Length = 213

>gnl|CDD|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score = 99.6 bits (248), Expect = 2e-26
 Identities = 59/163 (36%), Positives = 91/163 (55%), Gaps = 3/163 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI  +   + +E+D ++   +I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLES 135
           +F A+   Y +   G  +VY IT + +F+ +    +++    DT  V  +LVGNKCDLE 
Sbjct: 61  QFTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 136 IRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
            R VS EEG++LA   G   F+ETSA    NV   F  ++R+I
Sbjct: 121 ERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 163

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras 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 Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 96.2 bits (240), Expect = 3e-25
 Identities = 40/121 (33%), Positives = 63/121 (52%), Gaps = 11/121 (9%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVE-----FQTQSMEIDGKEVKAQIWD 71
           FK+V++GD   GK+  + R+   EF     AT+GVE     F T        +++  +WD
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTN-----RGKIRFNVWD 55

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC 131
           TAGQE+F  +   YY     A+I++D+T R T+ ++  W  +L       +  +L GNK 
Sbjct: 56  TAGQEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKV 114

Query: 132 D 132
           D
Sbjct: 115 D 115

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 bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 95.9 bits (239), Expect = 6e-25
 Identities = 52/171 (30%), Positives = 83/171 (48%), Gaps = 16/171 (9%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK++L+  Y  N +      T    F    + +DGK V+ Q+ DTAGQ+ 
Sbjct: 2   KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVV-VLVDGKPVRLQLCDTAGQDE 60

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLE-- 134
           F  +    Y      L+ + +   ++F +IS +W+ E++ H+      +LVG + DL   
Sbjct: 61  FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTD 119

Query: 135 ----------SIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVI 174
                       + VS    K+LAE  G   ++E SAL   N+K  F+  I
Sbjct: 120 VNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAI 170

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like

 Score = 95.1 bits (237), Expect = 3e-24
 Identities = 53/184 (28%), Positives = 84/184 (45%), Gaps = 21/184 (11%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI---DGKEVKAQIW 70
           +   KIV++GD   GK+ LL  YA+  F      T+   F+     +   +GK ++  +W
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV---FENYVTTLQVPNGKIIELALW 57

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGN 129
           DTAGQE +  +    Y      LI Y +   T+ D++  +W  E+  H       +LVG 
Sbjct: 58  DTAGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEV-NHFCPGTPIVLVGL 116

Query: 130 KCDLESIRN------------VSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIRE 176
           K DL   +N            V+ E+G+S+A++ G   ++E SA    NV   F+  I  
Sbjct: 117 KTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDAAINV 176

Query: 177 IYSN 180
             S 
Sbjct: 177 ALSK 180

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. 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. Length = 197

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 94.4 bits (235), Expect = 7e-24
 Identities = 39/121 (32%), Positives = 61/121 (50%), Gaps = 11/121 (9%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK++++GD  VGK+  + R+   EF      T+GVE        +   +   +WDTAGQE
Sbjct: 10  FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQE 69

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-----VARMLVGNKC 131
           +F  +   YY     A+I++D+T R T+ ++  W      H D       +  +LVGNK 
Sbjct: 70  KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNW------HRDIVRVCENIPIVLVGNKV 123

Query: 132 D 132
           D
Sbjct: 124 D 124

Length = 215

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 89.8 bits (223), Expect = 2e-22
 Identities = 52/169 (30%), Positives = 90/169 (53%), Gaps = 12/169 (7%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI ++GD+ +GK++L+ +Y   EF+     T+GV F  +++ I G E+   IWD  GQ  
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQRE 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL---- 133
           F  +     + AV  L ++D+TR++T +SI  W  + +  + T +  +LVG K DL    
Sbjct: 62  FINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADL 120

Query: 134 --ESIRNVSTEEGKSLAEA--EGLFFMETSALDSTNVKSAFEIVIREIY 178
             E    + T++ +  A+A    L F   S   S NV+  F+ V+ +++
Sbjct: 121 PPEEQEEI-TKQARKYAKAMKAPLIF--CSTSHSINVQKIFKFVLAKVF 166

Spg1p. 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 further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 182

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score = 89.8 bits (223), Expect = 4e-22
 Identities = 49/173 (28%), Positives = 88/173 (50%), Gaps = 1/173 (0%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++V++GDS VGKS+L + +    +   +    G +   +++ +DG+E    ++D   QE
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK-THSDTTVARMLVGNKCDLES 135
               +  +  +     +IVY +T R++F+  S    +L+       +  +LVGNK DL  
Sbjct: 61  DGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNKSDLVR 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNS 188
            R VS +EG++ A      F+ETSA    NV   FE ++R++      K  N+
Sbjct: 121 SREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGIVRQVRLRRDSKEKNT 173

RGK subfamily. 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 Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 88.3 bits (219), Expect = 1e-21
 Identities = 49/169 (28%), Positives = 84/169 (49%), Gaps = 13/169 (7%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+VI+GD   GK+  + R+   EF    + TIGVE        +  +++   WDTAGQE
Sbjct: 14  FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQE 73

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-----VARMLVGNKC 131
           +F  +   YY     A+I++D+T R T+ ++  W      H D       +  +L GNK 
Sbjct: 74  KFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTW------HRDLCRVCENIPIVLCGNKV 127

Query: 132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           D+++ R V  ++  +    + L + E SA  + N +  F  + R++  +
Sbjct: 128 DVKN-RQVKAKQ-VTFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD 174

Length = 219

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 84.4 bits (209), Expect = 4e-21
 Identities = 40/117 (34%), Positives = 59/117 (50%), Gaps = 4/117 (3%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V+IGD   GKS+LLS+    EF P      G      ++E+DG      IWD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISR---WLDELKTHSDTTVARMLVGNKC 131
            +     + + A   L+VYD+T R + + +SR   WL  L+      +  +LVGNK 
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRK-LGGKIPVILVGNKL 116

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis. Length = 116

>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score = 85.2 bits (211), Expect = 6e-21
 Identities = 45/163 (27%), Positives = 65/163 (39%), Gaps = 9/163 (5%)

Query: 20  VIIGDSAVGKSNLLSRYARNEFNPHSKATIG-VEFQTQSMEIDGKEVKAQIWDTAGQERF 78
           V++G   VGKS+LL+     E    S       +      E+D  +VK  + DT G + F
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEF 60

Query: 79  -----RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
                  +     RGA   L+V D T R + +     +          +  +LVGNK DL
Sbjct: 61  GGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRL--RKEGIPIILVGNKIDL 118

Query: 134 ESIRNVSTEE-GKSLAEAEGLFFMETSALDSTNVKSAFEIVIR 175
              R V      + LA+  G+   E SA     V   FE +I 
Sbjct: 119 LEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLIE 161

Ras-like GTPase superfamily. 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 regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 85.0 bits (210), Expect = 3e-20
 Identities = 57/196 (29%), Positives = 86/196 (43%), Gaps = 48/196 (24%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEF---QTQSMEIDGKEVKAQIWDTAG 74
           K+V++GD  VGK++LL RY    F   + +T+G  F   Q     I        IWDTAG
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRF-KDTVSTVGGAFYLKQWGPYNI-------SIWDTAG 53

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL 133
           +E+F  + S Y RGA   ++ YD++   + + +  R+L    T ++  +   +VGNK DL
Sbjct: 54  REQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCL-FAVVGNKLDL 112

Query: 134 -------------------ESIRNVSTEEGKSLAE---------------AEGLFFMETS 159
                              E  R V+ E+ K+  +               AE + F ETS
Sbjct: 113 TEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCF-ETS 171

Query: 160 ALDSTNVKSAFEIVIR 175
           A    NV   FE +  
Sbjct: 172 AKTGYNVDELFEYLFN 187

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. 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. Length = 220

>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 83.8 bits (207), Expect = 4e-20
 Identities = 49/163 (30%), Positives = 81/163 (49%), Gaps = 12/163 (7%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD A GK++LL+ + R  F    + T+  E     + +DG  V+  +WDTAGQE 
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTV-FENYIHDIFVDGLAVELSLWDTAGQEE 60

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI 136
           F  + S  Y      ++ + +    + +++ S+WL E++ H    V  +LV  KCDL   
Sbjct: 61  FDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHCP-GVKLVLVALKCDLREP 119

Query: 137 RNVSTEEGKSLAEAEGLF---------FMETSALDSTNVKSAF 170
           RN       +++  EGL          ++E SA  +  V  AF
Sbjct: 120 RNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAF 162

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. Length = 185

>gnl|CDD|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 81.4 bits (201), Expect = 2e-19
 Identities = 50/161 (31%), Positives = 80/161 (49%), Gaps = 4/161 (2%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++V+ G   VGKS+L+ R+ +  F      TI   ++ Q +         QI DT G  
Sbjct: 2   YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYR-QVISCSKSICTLQITDTTGSH 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDS---ISRWLDELKTHSDTTVARMLVGNKCDL 133
           +F A+           ++VY IT + + +    I   + E+K ++   +  MLVGNKCD 
Sbjct: 61  QFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDE 120

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
              R VS+ EG +LA      FMETSA  + NV+  F+ ++
Sbjct: 121 SPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQELL 161

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras 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 Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206663 cd01871, Rac1_like, Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3

 Score = 78.7 bits (194), Expect = 2e-18
 Identities = 55/177 (31%), Positives = 89/177 (50%), Gaps = 22/177 (12%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE- 76
           K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 61

Query: 77  --RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL 133
             R R ++  Y +  V  LI + +    +F+++  +W  E++ H   T   +LVG K DL
Sbjct: 62  YDRLRPLS--YPQTDV-FLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTKLDL 117

Query: 134 ----ESIRN--------VSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
               ++I          ++  +G ++A E   + ++E SAL    +K+ F+  IR +
Sbjct: 118 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 174

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 78.6 bits (194), Expect = 3e-18
 Identities = 58/172 (33%), Positives = 89/172 (51%), Gaps = 16/172 (9%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES- 135
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL + 
Sbjct: 62  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 120

Query: 136 ---IRN--------VSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
              IR         V  EEG+++AE  G F ++E SA     V+  FE+  R
Sbjct: 121 EHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVFEMATR 172

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. 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. RhoA and RhoC are observed only in geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 77.9 bits (192), Expect = 5e-18
 Identities = 56/170 (32%), Positives = 89/170 (52%), Gaps = 17/170 (10%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GDS  GK+ LL  +A++ F  +   T+  E  T S E+D + ++  +WDT+G   
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTV-FENYTASFEVDKQRIELSLWDTSGSPY 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +  V    Y  +   LI +DI+R  T DS+  +W  E++     T   +LVG K DL + 
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFCPNTPV-LLVGCKSDLRTD 120

Query: 137 RN------------VSTEEGKSLAEAEG-LFFMETSALDSTN-VKSAFEI 172
            +            VS E+G++LA+  G   ++E SA  S N V+  FE+
Sbjct: 121 LSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVFEM 170

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 176

>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization (Ras-dva) family

 Score = 78.3 bits (193), Expect = 6e-18
 Identities = 45/161 (27%), Positives = 81/161 (50%), Gaps = 3/161 (1%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           ++V +G + VGK+ L+ R+  + F P  + T+  E  ++  E+ G +V   I DT+G   
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYS 59

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLESI 136
           F A+     +      +VY +    +F+ + R  +E L+   D  V  ++VGNK D  + 
Sbjct: 60  FPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLAE 119

Query: 137 RNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEIVIRE 176
           R V   +  S  E +    F+E SA D+ NV   F+ ++++
Sbjct: 120 RQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELLQQ 160

Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras 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 Ras proteins. Length = 197

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 77.7 bits (191), Expect = 1e-17
 Identities = 43/156 (27%), Positives = 77/156 (49%), Gaps = 3/156 (1%)

Query: 22  IGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV 81
           +GD   GK+  + R+   EF     AT+GVE        +   ++  +WDTAGQE+F  +
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 82  TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST 141
              YY     A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  R V  
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKD-RKVKA 118

Query: 142 EEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           +   +    + L + + SA  + N +  F  + R++
Sbjct: 119 KS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 153

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

>gnl|CDD|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 77.2 bits (190), Expect = 1e-17
 Identities = 57/173 (32%), Positives = 85/173 (49%), Gaps = 20/173 (11%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK++LL  +   EF      T+   + T    +DGK V+  +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTD-CRVDGKPVQLALWDTAGQEE 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI----SRWLDELKTHSDTTVARMLVGNKCDL 133
           +  +    Y  A   LI + I    T DS+    ++W++E++ +    V  +LVG K DL
Sbjct: 62  YERLRPLSYSKAHVILIGFAI---DTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDL 117

Query: 134 --ESIRN--------VSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIR 175
             E++          V  ++ K +A A G   +ME SAL    V   FE   R
Sbjct: 118 RQEAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVFEAATR 170

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. 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 proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors). Length = 190

>gnl|CDD|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 76.2 bits (187), Expect = 3e-17
 Identities = 50/181 (27%), Positives = 89/181 (49%), Gaps = 16/181 (8%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N F      T+   +  Q   +DG+ V   +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQ-TAVDGRTVSLNLWDTAGQEE 63

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  + +  Y      +I + I   ++++++  +W  E+  H    V  +LVG K DL   
Sbjct: 64  YDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRND 122

Query: 134 -ESIRN--------VSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
            ++++         ++ ++G +LA+    + ++E SAL+   VK  F   +R + +    
Sbjct: 123 ADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLNPTPI 182

Query: 184 K 184
           K
Sbjct: 183 K 183

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. 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. Length = 191

>gnl|CDD|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 74.3 bits (183), Expect = 7e-17
 Identities = 32/167 (19%), Positives = 68/167 (40%), Gaps = 16/167 (9%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQT-QSMEIDGKEVKAQIWDTAGQE 76
           K++++G   VGK++L  +    +F+    +T G+  Q  +    + K+++  +WD  GQE
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQE 62

Query: 77  RFRAV------TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGN 129
            + A       + + Y      L+V+D+        +  WL ++K     + V  +LVG 
Sbjct: 63  IYHATHQFFLTSRSLY------LLVFDLRTGDEVSRVPYWLRQIKAFGGVSPV--ILVGT 114

Query: 130 KCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
             D     ++  +       A        S  +   +    + + +E
Sbjct: 115 HIDESCDEDILKKALNKKFPAIINDIHFVSCKNGKGIAELKKAIAKE 161

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

>gnl|CDD|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 73.3 bits (180), Expect = 2e-16
 Identities = 51/170 (30%), Positives = 87/170 (51%), Gaps = 14/170 (8%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V +GD AVGK+ +L  Y  N F      T+   F + ++ +DG  V   +WDTAGQE 
Sbjct: 3   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLWDTAGQED 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI 136
           +  +    YRGA   L+ + +  + +++++  +W+ EL+ H    V  +LVG K DL   
Sbjct: 62  YNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELR-HYAPGVPIVLVGTKLDLRDD 120

Query: 137 RN----------VSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIR 175
           +           ++T +G+ L +  G   ++E S+    NVK+ F+  I+
Sbjct: 121 KQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIK 170

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 73.2 bits (179), Expect = 3e-16
 Identities = 56/170 (32%), Positives = 88/170 (51%), Gaps = 17/170 (10%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GDS  GK+ LL  +A++ F P +      E  T S EID + ++  +WDT+G   
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCF-PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 65

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES- 135
           +  V    Y  +   LI +DI+R  T DS+  +W  E++     T   +LVG K DL + 
Sbjct: 66  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT-KMLLVGCKSDLRTD 124

Query: 136 ------IRN-----VSTEEGKSLAEAEGLF-FMETSALDSTN-VKSAFEI 172
                 + N     VS ++G ++A+  G   ++E SAL S N V+  F +
Sbjct: 125 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHV 174

Rnd3/RhoE/Rho8 subfamily. 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 junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 182

>gnl|CDD|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 70.5 bits (173), Expect = 9e-15
 Identities = 42/166 (25%), Positives = 79/166 (47%), Gaps = 13/166 (7%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++V++G S VGK+ ++SR+    F      TI  +F  +   I G+  +  I DT+G  
Sbjct: 1   YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNH 59

Query: 77  RFRAVTS-AYYRGAVGALIVYDITRRTTFDSISRWLDEL---------KTHSDTTVARML 126
            F A+   +   G V  ++V+ +  R +F+ + R  +++         KT  +  +  ++
Sbjct: 60  PFPAMRRLSILTGDV-FILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVI 118

Query: 127 VGNKCDLESIRNVSTEEGKSL-AEAEGLFFMETSALDSTNVKSAFE 171
            GNK D +  R V  +E + L    E   + E SA  ++N+   F 
Sbjct: 119 CGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFR 164

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. Most Ras 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 Ras proteins. Length = 247

>gnl|CDD|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 63.9 bits (155), Expect = 9e-13
 Identities = 49/176 (27%), Positives = 83/176 (47%), Gaps = 16/176 (9%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  YA + F P        +    S+ + GK+    ++DTAGQE
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAF-PEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQE 59

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES 135
            +  +    Y      LI + +    +F ++   W+ ELK ++   V  +L+G + DL  
Sbjct: 60  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPYLLIGTQIDLRD 118

Query: 136 I------------RNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIREIY 178
                        + ++ E+G+ LA+  G   ++E SAL    +K+ F+  I  I 
Sbjct: 119 DPKTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL 174

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 64.7 bits (157), Expect = 1e-12
 Identities = 57/206 (27%), Positives = 91/206 (44%), Gaps = 20/206 (9%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GD+  GK+ LL  +A++ + P S      E  T S EID   ++  +WDT+G   
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNY-PESYVPTVFENYTASFEIDKHRIELNMWDTSGSSY 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNK----CD 132
           +  V    Y  +   LI +DI+R  T DS+  +W  E +         +LVG K     D
Sbjct: 62  YDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC-PNAKLVLVGCKLDMRTD 120

Query: 133 LESIRNVST--------EEGKSLAEAEG-LFFMETSALDSTN-VKSAFEIVIREIYSNVS 182
           L ++R +S         E+G  LA   G + ++E S+  S N V+  F +          
Sbjct: 121 LSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSENSVRDVFHVTTLASVRREH 180

Query: 183 RKVLNSDSYKAELSLNRVTLVKSETD 208
             +  S S +    L R++       
Sbjct: 181 PSLKRSTSRR---GLKRISQQPLRPV 203

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 spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. 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. Length = 221

>gnl|CDD|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 63.0 bits (153), Expect = 2e-12
 Identities = 46/171 (26%), Positives = 82/171 (47%), Gaps = 16/171 (9%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 61

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 62  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPF-LLVGTQIDLRDD 120

Query: 134 ---------ESIRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
                       + ++ E G+ LA + + + ++E SAL    +K+ F+  I
Sbjct: 121 PSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAI 171

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 addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 59.5 bits (145), Expect = 2e-11
 Identities = 34/125 (27%), Positives = 56/125 (44%), Gaps = 6/125 (4%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+++G    GK+ +L +    E    +  TIG  F  +++E   K VK  +WD  GQ++
Sbjct: 1   RILMLGLDGAGKTTILYKLKLGEVV-TTIPTIG--FNVETVEY--KNVKFTVWDVGGQDK 55

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESI 136
            R +   YY    G + V D + R   +     L +L    +   A +L+  NK DL   
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGA 115

Query: 137 RNVST 141
              S 
Sbjct: 116 LTESE 120

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. 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. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 59.3 bits (143), Expect = 1e-10
 Identities = 53/196 (27%), Positives = 92/196 (46%), Gaps = 23/196 (11%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD   GK+ +L   A++ + P +      E  T  +E + + V+  +WDT+G   
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCY-PETYVPTVFENYTACLETEEQRVELSLWDTSGSPY 73

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDS-ISRWLDELKTHSDTTVARMLVGNKCDLES- 135
           +  V    Y  +   L+ +DI+R   FDS + +W  E+  +  +T   +L+G K DL + 
Sbjct: 74  YDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYCPSTRI-LLIGCKTDLRTD 132

Query: 136 ------IRN-----VSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIREIYSNVSR 183
                 + N     +S E+G ++A+  G   ++E SA  S       E  I  I+   S 
Sbjct: 133 LSTLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSAFTS-------EKSIHSIFRTASL 185

Query: 184 KVLNSDSYKAELSLNR 199
             +N  S  A+ S  R
Sbjct: 186 LCINKLSPLAKKSPVR 201

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 232

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 56.2 bits (136), Expect = 5e-10
 Identities = 38/169 (22%), Positives = 71/169 (42%), Gaps = 13/169 (7%)

Query: 19  IVIIGDSAVGKSNLL----SRYARN-EFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++I+G    GK+  L    +++++N +    SK T  V     ++E+     +   WD  
Sbjct: 2   VLILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLNIGTIEVGK--ARLMFWDLG 59

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCD 132
           GQE  R++   YY  + G + V D T R  F+      +++  +       +LV  NK D
Sbjct: 60  GQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQD 119

Query: 133 LE---SIRNVST--EEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
           L    S+  +    ++  +L           SAL+   V+   E ++  
Sbjct: 120 LPDALSVAEIKEVFDDCIALIGRRDCLVQPVSALEGEGVEEGIEWLVDC 168

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. Length = 168

>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases

 Score = 55.8 bits (135), Expect = 6e-10
 Identities = 40/128 (31%), Positives = 60/128 (46%), Gaps = 12/128 (9%)

Query: 10  GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKA 67
              +EY  K++I+G    GK+ +L ++   E   H+  TIG  VE      EI  K ++ 
Sbjct: 11  FPRKEY--KVIIVGLDNAGKTTILYQFLLGEV-VHTSPTIGSNVE------EIVYKNIRF 61

Query: 68  QIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV 127
            +WD  GQE  R+  + YY      ++V D T R         L ++  H D   A +LV
Sbjct: 62  LMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLV 121

Query: 128 -GNKCDLE 134
             NK DL+
Sbjct: 122 LANKQDLK 129

Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date. Length = 174

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 55.7 bits (135), Expect = 7e-10
 Identities = 32/118 (27%), Positives = 50/118 (42%), Gaps = 6/118 (5%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+I+G    GK+ +L +    E    +  TIG  F  +++    K VK  +WD  GQE
Sbjct: 15  MRILILGLDNAGKTTILYKLKLGEIV-TTIPTIG--FNVETVTY--KNVKFTVWDVGGQE 69

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
             R +   Y+      + V D   R   +     L  L    +   A +L+  NK DL
Sbjct: 70  SLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDL 127

Pfam combines a number of different Prosite families together. Length = 174

>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal

 Score = 54.3 bits (131), Expect = 2e-09
 Identities = 48/169 (28%), Positives = 71/169 (42%), Gaps = 30/169 (17%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPH-----SKATIGVEFQTQSMEIDGKEVKAQIWDT 72
           +IV+IGD  VGKS+L+      EF  +      + TI  +   +        V   I DT
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVTPE-------RVPTTIVDT 56

Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKC 131
           + + + RA  +A  R A    +VY + R +T + I ++WL  ++      V  +LVGNK 
Sbjct: 57  SSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRR-LGVKVPIILVGNKS 115

Query: 132 DLESIRNVSTEEGKSLAEAEGLFFM----------ETSALDSTNVKSAF 170
           DL    + +        E E L  M          E SA    NV   F
Sbjct: 116 DLRDGSSQAG------LEEEMLPIMNEFREIETCVECSAKTLINVSEVF 158

Miro1 subfamily. 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. Length = 168

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 48.6 bits (116), Expect = 3e-07
 Identities = 35/136 (25%), Positives = 55/136 (40%), Gaps = 20/136 (14%)

Query: 18  KIVIIGDSAVGKSNLLSRYA----------RNEFNPHSKATIGVEFQTQSMEIDGKEVKA 67
           KIV+IG    GK+  +   +           +  +   K    V     S+E+D      
Sbjct: 12  KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDT-GV 70

Query: 68  QIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDS--ISRWLDELKTHSDTTVARM 125
            ++ T GQERF+ +     RGAVGA+++ D +R  TF +  I  +L             +
Sbjct: 71  HLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPI------PV 124

Query: 126 LVG-NKCDLESIRNVS 140
           +V  NK DL       
Sbjct: 125 VVAINKQDLFDALPPE 140

Length = 187

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 48.3 bits (115), Expect = 4e-07
 Identities = 41/139 (29%), Positives = 65/139 (46%), Gaps = 8/139 (5%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI---DGKEVKAQIWDTA 73
             IV++G  + GK+ +L R   NEF  ++  T G  F T+ +++   + K V    WD  
Sbjct: 4   LHIVMLGLDSAGKTTVLYRLKFNEF-VNTVPTKG--FNTEKIKVSLGNAKGVTFHFWDVG 60

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL-KTHSDTTVARMLVGNKCD 132
           GQE+ R +  +Y R   G + V D       +     L ++ K   +  V  +++ NK D
Sbjct: 61  GQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQGVPVLVLANKQD 120

Query: 133 LESIRNVSTEEGKSLAEAE 151
           L +   VS  E K LA  E
Sbjct: 121 LPNALPVSEVE-KLLALHE 138

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 183

>gnl|CDD|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 47.6 bits (113), Expect = 9e-07
 Identities = 33/121 (27%), Positives = 61/121 (50%), Gaps = 10/121 (8%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKA---QIWDT 72
           K++++GDS VGKS+L+    +N+   +   T+G  V+ +  +      E K    ++WD 
Sbjct: 2   KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDV 61

Query: 73  AGQ----ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVG 128
            G     E  ++  + +Y    G + V+D+T + +  ++ RW  E   + DT  A +LV 
Sbjct: 62  GGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEA-LNRDTFPAGLLVT 120

Query: 129 N 129
           N
Sbjct: 121 N 121

RabL3 (Rab-like3) subfamily. RabL3s 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, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown. Length = 204

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 47.9 bits (114), Expect = 1e-06
 Identities = 31/110 (28%), Positives = 55/110 (50%), Gaps = 13/110 (11%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG----VEFQT------QSMEIDGKEVK- 66
           +++++GDS VGKS+L+    +         TIG    V+  T       S  I G   + 
Sbjct: 23  RVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERD 82

Query: 67  --AQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL 114
              ++WD +G ER++   S +Y    G + V+D+++R T  S+ +W  E+
Sbjct: 83  FFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEV 132

Length = 334

>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 46.2 bits (110), Expect = 1e-06
 Identities = 41/161 (25%), Positives = 70/161 (43%), Gaps = 26/161 (16%)

Query: 19  IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQ-----IWDTA 73
           I ++G    GK+ L++  A  +F+  +  T+G            ++V        +WD  
Sbjct: 2   ITLVGLQNSGKTTLVNVIASGQFSEDTIPTVGFNM---------RKVTKGNVTIKVWDLG 52

Query: 74  GQERFRAVTSAYYRGAVGALIVY--DITRRTTFDSISRWLDEL--KTHSDTTVARMLVGN 129
           GQ RFR++   Y RG     IVY  D   R   +     L +L  K   +  +  +++GN
Sbjct: 53  GQPRFRSMWERYCRGV--NAIVYVVDAADREKLEVAKNELHDLLEKPSLE-GIPLLVLGN 109

Query: 130 KCDLE---SIRNVSTEEG-KSLAEAEGLFFMETSALDSTNV 166
           K DL    S+  +  +   KS+ + E   +   SA + TN+
Sbjct: 110 KNDLPGALSVDELIEQMNLKSITDREVSCYS-ISAKEKTNI 149

Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved. Length = 159

>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 46.5 bits (110), Expect = 2e-06
 Identities = 49/199 (24%), Positives = 81/199 (40%), Gaps = 46/199 (23%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKAT--------------IGVEFQTQSME-I 60
             K V++GD+AVGK+ L+   A N+     +                +  E   +S + +
Sbjct: 2   TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVV 61

Query: 61  DGKEVKAQIWDTAG----QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISR-WLDELK 115
           DG  V  ++WDT G      RF     AY R  V  L+ + I    +  ++   W  E++
Sbjct: 62  DGVSVSLRLWDTFGDHDKDRRF-----AYGRSDV-VLLCFSIASPNSLRNVKTMWYPEIR 115

Query: 116 THSDTTVARMLVGNK-----CDLESI--------------RNVSTEEGKSLAEAEGLFFM 156
                 V  +LVG K      DL+ +                +  E G+++A+  G+ + 
Sbjct: 116 HFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYY 174

Query: 157 ETSALDSTNVKSAFEIVIR 175
           ETS +    VK  F+  IR
Sbjct: 175 ETSVVTQFGVKDVFDNAIR 193

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature. Length = 195

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 44.2 bits (104), Expect = 7e-06
 Identities = 34/127 (26%), Positives = 57/127 (44%), Gaps = 8/127 (6%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           ++V +G    GK+ +L +  ++EF      TIG   +T    ++ K +K  IWD  G+ +
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEFM-QPIPTIGFNVET----VEYKNLKFTIWDVGGKHK 55

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESI 136
            R +   YY      + V D + R         L +L T  +   A +L+  NK D+   
Sbjct: 56  LRPLWKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA 115

Query: 137 RNVSTEE 143
             +S EE
Sbjct: 116 --LSVEE 120

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor

 Score = 43.8 bits (103), Expect = 1e-05
 Identities = 32/117 (27%), Positives = 51/117 (43%), Gaps = 6/117 (5%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+++G  A GK+ +L +    E    +  TIG   +T    +  K +   +WD  GQ++
Sbjct: 15  RILMVGLDAAGKTTILYKLKLGESVT-TIPTIGFNVET----VTYKNISFTVWDVGGQDK 69

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
            R +   YY    G + V D   R   D     L  +    +   A +LV  NK DL
Sbjct: 70  IRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDL 126

Ras homologues involved in vesicular transport. Activator 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. Contains ATP/GTP-binding motif (P-loop). Length = 175

>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 42.8 bits (101), Expect = 3e-05
 Identities = 34/118 (28%), Positives = 54/118 (45%), Gaps = 7/118 (5%)

Query: 18  KIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++++G DSA GKS LL +    E       T+G  F  + ++++   +   +WD  GQE
Sbjct: 1   QVLLLGLDSA-GKSTLLYKLKHAELVTTI-PTVG--FNVEMLQLEKH-LSLTVWDVGGQE 55

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDL 133
           + R V   Y     G + V D +     D   + L   LK      V  +L+ NK DL
Sbjct: 56  KMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDL 113

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

>gnl|CDD|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 42.1 bits (99), Expect = 4e-05
 Identities = 35/118 (29%), Positives = 55/118 (46%), Gaps = 8/118 (6%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATI-GVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +I+++G  A GK+ +L +    +    S  TI  V F  +++    K VK  +WD  GQ+
Sbjct: 11  RILMLGLDAAGKTTILYKLKLGQ----SVTTIPTVGFNVETVTY--KNVKFNVWDVGGQD 64

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
           + R +   YY G  G + V D   R   D   + L  +    +   A +LV  NK DL
Sbjct: 65  KIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDL 122

Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection. Length = 168

>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score = 41.9 bits (99), Expect = 6e-05
 Identities = 44/145 (30%), Positives = 60/145 (41%), Gaps = 17/145 (11%)

Query: 18  KIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           KIV +G D+A GK+ LL     +    H   T+     ++ + I    VK   +D  G E
Sbjct: 21  KIVFLGLDNA-GKTTLLHMLKDDRLAQHV-PTLH--PTSEELTIGN--VKFTTFDLGGHE 74

Query: 77  RFRAVTSAYYRGAVGALIVY--DITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDL 133
           + R V   Y+    G  IV+  D      F      LD  L       V  +++GNK D 
Sbjct: 75  QARRVWKDYFPEVDG--IVFLVDAADPERFQESKEELDSLLNDEELANVPILILGNKIDK 132

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMET 158
                VS EE   L EA GL+   T
Sbjct: 133 P--GAVSEEE---LREALGLYGTTT 152

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation. Length = 191

>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score = 41.1 bits (96), Expect = 1e-04
 Identities = 31/124 (25%), Positives = 55/124 (44%), Gaps = 6/124 (4%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNVET----VEYKNISFTVWDVGGQDK 73

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESI 136
            R +   Y++   G + V D   R         L  +    +   A +LV  NK DL + 
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133

Query: 137 RNVS 140
            N +
Sbjct: 134 MNAA 137

Length = 181

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 32/117 (27%), Positives = 52/117 (44%), Gaps = 6/117 (5%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+++G    GK+ +L + A  + + H   T G  F  ++++ DG   K  +WD  GQ +
Sbjct: 17  RILLLGLDNAGKTTILKQLASEDIS-HITPTQG--FNIKNVQADGF--KLNVWDIGGQRK 71

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
            R     Y+      + V D   R  F+   + L EL          +LV  NK DL
Sbjct: 72  IRPYWRNYFENTDVLIYVIDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDL 128

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. Length = 174

>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 40.2 bits (94), Expect = 2e-04
 Identities = 32/117 (27%), Positives = 55/117 (47%), Gaps = 6/117 (5%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +K  +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVET----VEYKNLKFTMWDVGGQDK 73

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
            R +   YY+   G + V D   R         L+ + +  +   A +LV  NK DL
Sbjct: 74  LRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDL 130

Length = 182

>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only]

 Score = 40.6 bits (96), Expect = 4e-04
 Identities = 44/185 (23%), Positives = 66/185 (35%), Gaps = 46/185 (24%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKA-----------TIGVEFQTQSMEIDGKEV 65
            K+VIIG   VGKS+LL+     +     +A            I  +       ++G  V
Sbjct: 218 LKVVIIGRPNVGKSSLLNALLGRD-----RAIVTDIAGTTRDVIEEDI-----NLNGIPV 267

Query: 66  KAQIWDTAGQ-------ERF---RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK 115
           +  + DTAG        ER    RA  +     A   L V D ++          ++ L 
Sbjct: 268 R--LVDTAGIRETDDVVERIGIERAKKAI--EEADLVLFVLDASQPLD-KEDLALIELLP 322

Query: 116 THSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR 175
                 V    V NK DL     VS  E +S   A G   +  SA     +  A    I+
Sbjct: 323 KKKPIIV----VLNKADL-----VSKIELESEKLANGDAIISISAKTGEGL-DALREAIK 372

Query: 176 EIYSN 180
           +++  
Sbjct: 373 QLFGK 377

Length = 454

>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG)

 Score = 39.1 bits (92), Expect = 4e-04
 Identities = 48/175 (27%), Positives = 76/175 (43%), Gaps = 33/175 (18%)

Query: 19  IVIIGDSAVGKS---NLLSRYARNEFNPHSKATIGVEFQTQSMEI---DGKEVKAQIWDT 72
           +VI G   VGKS   N L+R A+ E  P+        F T+S+ +   D K ++ Q+ DT
Sbjct: 3   LVIAGYPNVGKSSLVNKLTR-AKPEVAPYP-------FTTKSLFVGHFDYKYLRWQVIDT 54

Query: 73  AG------QER----FRAVTS-AYYRGAVGALIVYDITRR--TTFDSISRWLDELKTHSD 119
            G      +ER     +A+T+ A+ R AV  L   D +     + +       E+K   +
Sbjct: 55  PGILDRPLEERNTIEMQAITALAHLRAAV--LFFIDPSETCGYSIEEQLSLFKEIKPLFN 112

Query: 120 TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
             V  ++V NK DL +  ++S  E +   E EG   ++ S L    V        
Sbjct: 113 KPV--IVVLNKIDLLTEEDLS--EIEKELEKEGEEVIKISTLTEEGVDELKNKAC 163

NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins. Length = 167

>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 39.5 bits (92), Expect = 5e-04
 Identities = 32/142 (22%), Positives = 58/142 (40%), Gaps = 31/142 (21%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD----- 71
            ++ ++G   VGK+ ++ ++   EF      T        ++ + G+     I D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 72  ----TAGQE----RFRAV--TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT 121
               TAGQE    RFR +  + A+       ++VYDI    +F  +     ++    +T 
Sbjct: 61  RYPGTAGQEWMDPRFRGLRNSRAF-------ILVYDICSPDSFHYVKLLRQQI---LETR 110

Query: 122 VAR------MLVGNKCDLESIR 137
            A       ++VGNK D +  R
Sbjct: 111 PAGNKEPPIVVVGNKRDQQRHR 132

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras 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 Ras proteins. Like most Ras family proteins, RRP22 is farnesylated. Length = 198

>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score = 37.0 bits (86), Expect = 0.002
 Identities = 29/123 (23%), Positives = 53/123 (43%), Gaps = 14/123 (11%)

Query: 19  IVIIGDSAVGKSNLLSRYAR-NEFNPHSKATIG--VE-FQTQSMEIDGKEVKAQIWDTAG 74
           I+++G    GK+ ++++    N  + +   T+G  VE F+  ++           +D +G
Sbjct: 2   ILVLGLDNSGKTTIINQLKPSNAQSQNIVPTVGFNVESFKKGNLSF-------TAFDMSG 54

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM---LVGNKC 131
           Q ++R +   YY+   G + V D + R         L+ L  H D    R+      NK 
Sbjct: 55  QGKYRGLWEHYYKNIQGIIFVIDSSDRLRMVVAKDELELLLNHPDIKHRRIPILFYANKM 114

Query: 132 DLE 134
           DL 
Sbjct: 115 DLP 117

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	222
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
PLN03108	210	Rab family protein; Provisional	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.98
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.98
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.98
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.98
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.97
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.97
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.97
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.97
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.97
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.97
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.97
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.97
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.97
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.97
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.97
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.97
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.97
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.97
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.96
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.96
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.96
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.96
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.96
PLN00223	181	ADP-ribosylation factor; Provisional	99.96
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.96
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.96
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.96
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.96
KOG0395	196	consensus Ras-related GTPase [General function pre	99.96
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.96
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.96
PTZ00133	182	ADP-ribosylation factor; Provisional	99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.96
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.96
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.95
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.95
PTZ00099	176	rab6; Provisional	99.95
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.95
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.94
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.94
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.94
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.94
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.94
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.94
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.94
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.94
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.93
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.93
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.93
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.93
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.93
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.93
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.93
PRK12299	335	obgE GTPase CgtA; Reviewed	99.92
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.92
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.91
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.91
COG1100	219	GTPase SAR1 and related small G proteins [General	99.91
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.91
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.9
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.9
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.9
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.9
PRK04213	201	GTP-binding protein; Provisional	99.9
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.89
KOG1673	205	consensus Ras GTPases [General function prediction	99.89
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.89
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.89
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.89
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.88
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.88
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.88
PRK03003	472	GTP-binding protein Der; Reviewed	99.88
cd00881	189	GTP_translation_factor GTP translation factor fami	99.88
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.88
PRK12297	424	obgE GTPase CgtA; Reviewed	99.88
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.87
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.87
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.87
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.87
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.87
PRK15494	339	era GTPase Era; Provisional	99.87
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.87
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.87
PRK11058	426	GTPase HflX; Provisional	99.87
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.86
PRK12296	500	obgE GTPase CgtA; Reviewed	99.86
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.86
PRK03003	472	GTP-binding protein Der; Reviewed	99.86
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.86
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.86
PRK12298	390	obgE GTPase CgtA; Reviewed	99.85
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.85
CHL00189	742	infB translation initiation factor 2; Provisional	99.85
PRK05306	787	infB translation initiation factor IF-2; Validated	99.85
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.85
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.85
PRK00089	292	era GTPase Era; Reviewed	99.85
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.85
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.84
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.84
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.84
PRK00093	435	GTP-binding protein Der; Reviewed	99.84
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.83
COG1159	298	Era GTPase [General function prediction only]	99.83
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.82
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.82
PRK05433	600	GTP-binding protein LepA; Provisional	99.82
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.82
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.82
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.81
COG2229	187	Predicted GTPase [General function prediction only	99.81
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.8
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.8
COG1160	444	Predicted GTPases [General function prediction onl	99.8
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.8
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.8
COG1160	444	Predicted GTPases [General function prediction onl	99.8
PRK12317	425	elongation factor 1-alpha; Reviewed	99.79
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.79
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.78
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.78
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.78
COG0486	454	ThdF Predicted GTPase [General function prediction	99.78
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.78
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.78
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.78
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.78
PRK10218	607	GTP-binding protein; Provisional	99.77
PRK04004	586	translation initiation factor IF-2; Validated	99.77
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.77
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.77
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.76
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.75
PRK12736	394	elongation factor Tu; Reviewed	99.74
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.74
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.74
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.74
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.73
PRK12735	396	elongation factor Tu; Reviewed	99.73
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.73
COG1084	346	Predicted GTPase [General function prediction only	99.73
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.72
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.72
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.71
CHL00071	409	tufA elongation factor Tu	99.7
COG0218	200	Predicted GTPase [General function prediction only	99.7
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.69
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.69
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.69
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.69
COG2262	411	HflX GTPases [General function prediction only]	99.68
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.67
PRK00049	396	elongation factor Tu; Reviewed	99.67
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.67
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.66
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.66
PLN00043	447	elongation factor 1-alpha; Provisional	99.66
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.66
PLN03127	447	Elongation factor Tu; Provisional	99.66
PLN03126	478	Elongation factor Tu; Provisional	99.66
COG0536	369	Obg Predicted GTPase [General function prediction	99.65
PTZ00141	446	elongation factor 1- alpha; Provisional	99.65
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.65
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.65
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.64
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.62
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.62
KOG1145	683	consensus Mitochondrial translation initiation fac	99.61
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.6
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.6
PRK13351	687	elongation factor G; Reviewed	99.6
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.6
COG1163	365	DRG Predicted GTPase [General function prediction	99.59
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.57
PRK12739	691	elongation factor G; Reviewed	99.56
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.56
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.56
PRK09866	741	hypothetical protein; Provisional	99.56
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.55
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.55
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.55
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.55
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.55
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.54
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.53
PRK09602	396	translation-associated GTPase; Reviewed	99.53
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.52
COG3596	296	Predicted GTPase [General function prediction only	99.51
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.49
PRK00007	693	elongation factor G; Reviewed	99.48
PRK12740	668	elongation factor G; Reviewed	99.46
PRK14845	1049	translation initiation factor IF-2; Provisional	99.45
KOG0090	238	consensus Signal recognition particle receptor, be	99.44
PTZ00258	390	GTP-binding protein; Provisional	99.43
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.42
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.41
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.41
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.41
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.4
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.4
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.39
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.38
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.37
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.37
PRK09601	364	GTP-binding protein YchF; Reviewed	99.36
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.33
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.32
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.32
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.32
PRK13768	253	GTPase; Provisional	99.31
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.31
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.31
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.31
PTZ00416	836	elongation factor 2; Provisional	99.31
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.31
PRK07560	731	elongation factor EF-2; Reviewed	99.3
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.29
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.28
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.27
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.27
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.27
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.25
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.23
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.23
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.22
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.21
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.19
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.19
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.18
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.18
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.14
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.14
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.12
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.12
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.1
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.07
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.06
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.0
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.98
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.98
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.97
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.95
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.94
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.91
PRK12289	352	GTPase RsgA; Reviewed	98.88
KOG0410	410	consensus Predicted GTP binding protein [General f	98.88
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.85
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.84
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.83
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.82
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.8
PRK12288	347	GTPase RsgA; Reviewed	98.78
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.77
PRK00098	298	GTPase RsgA; Reviewed	98.77
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.75
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.73
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.7
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.66
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.66
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.65
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.65
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.61
KOG2486	320	consensus Predicted GTPase [General function predi	98.61
KOG0460	449	consensus Mitochondrial translation elongation fac	98.61
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.61
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.6
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.57
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.55
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.54
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.53
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.53
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.5
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.5
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.48
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.48
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.48
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.47
PRK10416	318	signal recognition particle-docking protein FtsY;	98.46
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.45
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.42
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.4
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.4
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.39
KOG1143	591	consensus Predicted translation elongation factor	98.38
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.38
COG1161	322	Predicted GTPases [General function prediction onl	98.38
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.34
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.34
PRK14974	336	cell division protein FtsY; Provisional	98.32
cd03112	158	CobW_like The function of this protein family is u	98.32
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.32
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.32
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.3
PRK12288	347	GTPase RsgA; Reviewed	98.28
PRK01889	356	GTPase RsgA; Reviewed	98.26
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.24
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.22
COG1162	301	Predicted GTPases [General function prediction onl	98.21
KOG0099	379	consensus G protein subunit Galphas, small G prote	98.2
PRK12289	352	GTPase RsgA; Reviewed	98.19
PRK13796	365	GTPase YqeH; Provisional	98.18
COG3523	1188	IcmF Type VI protein secretion system component Va	98.17
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.15
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.14
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.11
PRK13796	365	GTPase YqeH; Provisional	98.09
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.09
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.05
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.0
COG1162	301	Predicted GTPases [General function prediction onl	98.0
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.97
PRK00098	298	GTPase RsgA; Reviewed	97.97
PRK13695	174	putative NTPase; Provisional	97.96
cd03110	179	Fer4_NifH_child This protein family's function is	97.96
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.94
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.87
cd03114	148	ArgK-like The function of this protein family is u	97.87
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.87
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.86
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.85
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.84
KOG4273	418	consensus Uncharacterized conserved protein [Funct	97.84
COG0523	323	Putative GTPases (G3E family) [General function pr	97.84
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.82
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.79
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.79
KOG0465	721	consensus Mitochondrial elongation factor [Transla	97.79
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.76
PRK10867	433	signal recognition particle protein; Provisional	97.75
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.75
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	97.71
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.7
TIGR00959	428	ffh signal recognition particle protein. This mode	97.68
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.68
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.64
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.58
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.56
PF00004	132	AAA: ATPase family associated with various cellula	97.56
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.53
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.52
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.51
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.5
KOG2484	435	consensus GTPase [General function prediction only	97.43
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.43
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.41
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.4
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.4
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.39
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.39
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.38
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.35
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.34
COG4598	256	HisP ABC-type histidine transport system, ATPase c	97.34
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.33
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.32
PRK04195	482	replication factor C large subunit; Provisional	97.32
PRK08118	167	topology modulation protein; Reviewed	97.32
PRK10646	153	ADP-binding protein; Provisional	97.31
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.29
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	97.28
PRK07261	171	topology modulation protein; Provisional	97.27
cd03111	106	CpaE_like This protein family consists of proteins	97.27
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.26
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.26
COG0802	149	Predicted ATPase or kinase [General function predi	97.24
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.23
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.2
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.2
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.18
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.13
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.1
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.09
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.07
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.06
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.05
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	97.03
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.02
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.01
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.01
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.0
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.99
PRK14738	206	gmk guanylate kinase; Provisional	96.98
cd02036	179	MinD Bacterial cell division requires the formatio	96.98
PRK14737	186	gmk guanylate kinase; Provisional	96.97
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.96
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.96
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.95
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.95
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.93
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.92
smart00382	148	AAA ATPases associated with a variety of cellular	96.92
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.9
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.89
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.89
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.89
PRK06217	183	hypothetical protein; Validated	96.86
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.85
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.85
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.85
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.84
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.83
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.82
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	96.82
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.81
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.81
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.81
PRK01889	356	GTPase RsgA; Reviewed	96.81
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.8
COG3638	258	ABC-type phosphate/phosphonate transport system, A	96.8
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.79
PRK14530	215	adenylate kinase; Provisional	96.78
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.78
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.78
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.77
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.76
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.76
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.75
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.75
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.74

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.3e-41  Score=246.61  Aligned_cols=176  Identities=49%  Similarity=0.840  Sum_probs=168.1

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ...++.+||+|+|++|||||.|+.++....+.+.+..|+|+++....+.++++.+++++|||+|+++|......+|++++
T Consensus         4 ~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ah   83 (205)
T KOG0084|consen    4 PEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAH   83 (205)
T ss_pred             cccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCC
Confidence            45688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~  169 (222)
                      +||+|||+++.+||+.+..|+.++..+....+|.++||||+|+.+.+.++.++++.|+..++++ ++++||+++.||.+.
T Consensus        84 Gii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~  163 (205)
T KOG0084|consen   84 GIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDA  163 (205)
T ss_pred             eEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999 999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcc
Q 040481          170 FEIVIREIYSNVSRKVL  186 (222)
Q Consensus       170 ~~~i~~~~~~~~~~~~~  186 (222)
                      |..|...+.++......
T Consensus       164 F~~la~~lk~~~~~~~~  180 (205)
T KOG0084|consen  164 FLTLAKELKQRKGLHVK  180 (205)
T ss_pred             HHHHHHHHHHhcccCCC
Confidence            99999988877665443

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=6.6e-38  Score=231.62  Aligned_cols=172  Identities=48%  Similarity=0.886  Sum_probs=166.6

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +.++.+||+++|+++||||+|+.++..+.+...+..++|+++....+..++..+.+++|||+|++++..+...+|+.|++
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~g   87 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMG   87 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCe
Confidence            77889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +++|||+++..||+++..|+..+..+....+|.++||||+|+...+.++.+..+.+|.++|++|+|+||++|.||+++|.
T Consensus        88 i~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~  167 (207)
T KOG0078|consen   88 ILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFL  167 (207)
T ss_pred             eEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHH
Confidence            99999999999999999999999999998999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhh
Q 040481          172 IVIREIYSNVSR  183 (222)
Q Consensus       172 ~i~~~~~~~~~~  183 (222)
                      .+...++...+.
T Consensus       168 ~La~~i~~k~~~  179 (207)
T KOG0078|consen  168 SLARDILQKLED  179 (207)
T ss_pred             HHHHHHHhhcch
Confidence            999999875544

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.5e-38  Score=229.11  Aligned_cols=172  Identities=39%  Similarity=0.714  Sum_probs=162.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...+||+++|+.+||||||+-++..+.+.+...+|+|.-+..+.+.+++..++|.||||+|+++|.++.+.+|++++++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            45789999999999999999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||+++.+||..+..|+.++.+.....+-+.+||||+||.+.+++..+++..+++..+..|+++||++|.||+++|..|
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~I  162 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAI  162 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHH
Confidence            99999999999999999999999888778778899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhhc
Q 040481          174 IREIYSNVSRKV  185 (222)
Q Consensus       174 ~~~~~~~~~~~~  185 (222)
                      .+.+........
T Consensus       163 a~~lp~~~~~~~  174 (200)
T KOG0092|consen  163 AEKLPCSDPQER  174 (200)
T ss_pred             HHhccCcccccc
Confidence            998887765543

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-37  Score=225.79  Aligned_cols=173  Identities=38%  Similarity=0.661  Sum_probs=161.1

Q ss_pred             CCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcC
Q 040481            9 GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG   88 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   88 (222)
                      +....-+..||+++|+.+|||||||.+++...+...|.+|+|+++...++.+.+..+.+++|||+|+++|..+.+.+++.
T Consensus        15 ~~~~~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rd   94 (221)
T KOG0094|consen   15 TFGAPLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRD   94 (221)
T ss_pred             ccCccceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccC
Confidence            34455556899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCC-CcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~-~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      +.++|+|||+++..||+...+|+..+......+ +-+++||||.||.+.+++..++....++++++.|+++||+.|.||.
T Consensus        95 s~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk  174 (221)
T KOG0094|consen   95 SSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVK  174 (221)
T ss_pred             CeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHH
Confidence            999999999999999999999999999988764 7777889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 040481          168 SAFEIVIREIYSNV  181 (222)
Q Consensus       168 ~~~~~i~~~~~~~~  181 (222)
                      ++|..|...+....
T Consensus       175 ~lFrrIaa~l~~~~  188 (221)
T KOG0094|consen  175 QLFRRIAAALPGME  188 (221)
T ss_pred             HHHHHHHHhccCcc
Confidence            99999777666553

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.1e-37  Score=226.51  Aligned_cols=182  Identities=66%  Similarity=1.050  Sum_probs=173.5

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ....++.+||+++|++++|||-|+.++..+++.....+|+|+++....+.++++.+..+||||+|+++|+....++|+.+
T Consensus         8 ~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgA   87 (222)
T KOG0087|consen    8 SEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGA   87 (222)
T ss_pred             ccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhccc
Confidence            45778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      .+.++|||++.+.+|+.+.+|+.+++.+.+..+++++||||+||...+.+..++++.++...+..++++||.++.||..+
T Consensus        88 vGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~a  167 (222)
T KOG0087|consen   88 VGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKA  167 (222)
T ss_pred             ceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHH
Confidence            99999999999999999999999999999999999999999999998999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhccCCcch
Q 040481          170 FEIVIREIYSNVSRKVLNSDSY  191 (222)
Q Consensus       170 ~~~i~~~~~~~~~~~~~~s~~~  191 (222)
                      |..++..++....++.......
T Consensus       168 F~~~l~~I~~~vs~k~~~~~~~  189 (222)
T KOG0087|consen  168 FERVLTEIYKIVSKKQLDENND  189 (222)
T ss_pred             HHHHHHHHHHHHHHHhhhcccc
Confidence            9999999999988776554433

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=6e-37  Score=215.89  Aligned_cols=170  Identities=47%  Similarity=0.780  Sum_probs=161.2

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      +.....+||+++|.+|+|||+|+.++..+.+.+....++|+++.++.+.+++..+++-||||+|+++|..+++.+|+.+.
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaq   85 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQ   85 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCc
Confidence            56778899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|||++.+++|..+..|++++..+.. ..+..++|+||+|....+.+..++...|++++++.|+++||++.+||...
T Consensus        86 GiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~  165 (209)
T KOG0080|consen   86 GIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCC  165 (209)
T ss_pred             eeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHH
Confidence            99999999999999999999999988875 55667899999999888999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          170 FEIVIREIYSN  180 (222)
Q Consensus       170 ~~~i~~~~~~~  180 (222)
                      |+.++.++++-
T Consensus       166 FeelveKIi~t  176 (209)
T KOG0080|consen  166 FEELVEKIIET  176 (209)
T ss_pred             HHHHHHHHhcC
Confidence            99999988754

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=9.9e-37  Score=219.97  Aligned_cols=170  Identities=54%  Similarity=0.910  Sum_probs=163.2

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ..+.+|++++|+.|||||+|+.+++...+.+.+..|+|+++-...+.+++..+++++|||+|++.+.+.+..+|+.+.++
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~Ga   82 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGA   82 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcce
Confidence            45779999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++.+++|..+..|+..++++....+-+++|+||+||...+.+..++.+.||++++..++++||++++||.+.|..
T Consensus        83 lLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~n  162 (216)
T KOG0098|consen   83 LLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFIN  162 (216)
T ss_pred             EEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHH
Confidence            99999999999999999999999998888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q 040481          173 VIREIYSNVS  182 (222)
Q Consensus       173 i~~~~~~~~~  182 (222)
                      +...+++...
T Consensus       163 ta~~Iy~~~q  172 (216)
T KOG0098|consen  163 TAKEIYRKIQ  172 (216)
T ss_pred             HHHHHHHHHH
Confidence            8888887655

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=3.6e-36  Score=229.72  Aligned_cols=169  Identities=38%  Similarity=0.749  Sum_probs=154.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +.|+++|+.|||||||++++..+.+...+.++.+.++....+.+++..+.+++||++|++.+..++..+++.+|++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            36999999999999999999999998888899888888888889999999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |++++.+|+.+..|+..+......++|+++|+||+|+.+.+.+..+++.+++... ++.|++|||++|.||+++|.++++
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~  160 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVD  160 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHH
Confidence            9999999999999999988776677999999999999877888888888899885 789999999999999999999999


Q ss_pred             HHHHHhhhhc
Q 040481          176 EIYSNVSRKV  185 (222)
Q Consensus       176 ~~~~~~~~~~  185 (222)
                      .+........
T Consensus       161 ~~~~~~~~~~  170 (202)
T cd04120         161 DILKKMPLDI  170 (202)
T ss_pred             HHHHhCcccc
Confidence            8876544333

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. 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. 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

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=6.6e-36  Score=231.27  Aligned_cols=172  Identities=62%  Similarity=1.045  Sum_probs=157.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..++.+||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+++||++|++.+...+..+++.+++
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~   87 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCE
Confidence            35577999999999999999999999998887888888888888888889989999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+|+.+..|+..+.......+|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|+
T Consensus        88 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~  167 (216)
T PLN03110         88 ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQ  167 (216)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887767899999999999987778888889999999999999999999999999999


Q ss_pred             HHHHHHHHHhhh
Q 040481          172 IVIREIYSNVSR  183 (222)
Q Consensus       172 ~i~~~~~~~~~~  183 (222)
                      +++..+.+....
T Consensus       168 ~l~~~i~~~~~~  179 (216)
T PLN03110        168 TILLEIYHIISK  179 (216)
T ss_pred             HHHHHHHHHhhc
Confidence            999998876543

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=8.9e-36  Score=225.51  Aligned_cols=168  Identities=37%  Similarity=0.692  Sum_probs=154.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .+..+||+++|+.|||||||++++..+.+...+.++.+.++....+.+++..+.+++||++|++.+..++..+++.+|++
T Consensus         3 ~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~i   82 (189)
T cd04121           3 YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI   82 (189)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            34669999999999999999999999888777778888888778888899999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+|+.+..|+..+.... .++|++|||||.|+...+.+..++++.+++..+++|++|||++|.||+++|++
T Consensus        83 llVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~  161 (189)
T cd04121          83 ILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTE  161 (189)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            99999999999999999999997765 57999999999999877888999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 040481          173 VIREIYSNV  181 (222)
Q Consensus       173 i~~~~~~~~  181 (222)
                      +++.+..+.
T Consensus       162 l~~~i~~~~  170 (189)
T cd04121         162 LARIVLMRH  170 (189)
T ss_pred             HHHHHHHhc
Confidence            998777543

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for 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 d

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=2.4e-35  Score=225.96  Aligned_cols=168  Identities=38%  Similarity=0.722  Sum_probs=150.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      +||+++|++|||||||+++|.++.+...+.++.+.++....+.++ +..+.+.+||+||++.+..++..+++.+|++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            589999999999999999999998888888988888877777777 7889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEEccCCCCCHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS----DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAF  170 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~  170 (222)
                      ||++++.+|+.+..|+..+....    ...+|++||+||+|+.+.+.+..+++.+++...+ +.++++||++|.||+++|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  160 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAM  160 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHH
Confidence            99999999999999998886532    2568999999999998667788889999999988 689999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q 040481          171 EIVIREIYSNVSRK  184 (222)
Q Consensus       171 ~~i~~~~~~~~~~~  184 (222)
                      +++++.+.+.....
T Consensus       161 ~~l~~~l~~~~~~~  174 (201)
T cd04107         161 RFLVKNILANDKNL  174 (201)
T ss_pred             HHHHHHHHHhchhh
Confidence            99999888765443

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.

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.7e-36  Score=209.84  Aligned_cols=168  Identities=45%  Similarity=0.803  Sum_probs=160.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      -++.++.+|+|++|+|||+|+.++....+...|..++|+++.+.++.+++..+.++|||++|++.|..++..+|+..+++
T Consensus         5 ~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv   84 (198)
T KOG0079|consen    5 YDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGV   84 (198)
T ss_pred             HHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceE
Confidence            45567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      ++|||+++.+||.+..+|+.+++...+ .+|-++||||.|.++.+.+..++++.|+...++.+|++||++++|+...|.-
T Consensus        85 ~vVYDVTn~ESF~Nv~rWLeei~~ncd-sv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~c  163 (198)
T KOG0079|consen   85 IVVYDVTNGESFNNVKRWLEEIRNNCD-SVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHC  163 (198)
T ss_pred             EEEEECcchhhhHhHHHHHHHHHhcCc-cccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHH
Confidence            999999999999999999999999886 6788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 040481          173 VIREIYSNV  181 (222)
Q Consensus       173 i~~~~~~~~  181 (222)
                      |...++..+
T Consensus       164 it~qvl~~k  172 (198)
T KOG0079|consen  164 ITKQVLQAK  172 (198)
T ss_pred             HHHHHHHHH
Confidence            999887766

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=1.9e-34  Score=218.69  Aligned_cols=165  Identities=42%  Similarity=0.763  Sum_probs=151.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.+|++|+||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            58999999999999999999999987778888888888788888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+|+.+..|+..+........|+++|+||.|+.+...+..+++..++...+++++++||++|.|++++|.++++.
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~  160 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKL  160 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999988766668999999999998777788888888998889999999999999999999999998


Q ss_pred             HHHHh
Q 040481          177 IYSNV  181 (222)
Q Consensus       177 ~~~~~  181 (222)
                      +.++.
T Consensus       161 ~~~~~  165 (188)
T cd04125         161 IIKRL  165 (188)
T ss_pred             HHHHh
Confidence            87654

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.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=3.6e-34  Score=222.31  Aligned_cols=169  Identities=26%  Similarity=0.445  Sum_probs=150.0

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +....+||+++|+++||||+|+++|..+.+...+.|+.+..+. ..+.+++..+.+.+|||+|++.+..++..+++.+|+
T Consensus         9 ~~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~   87 (232)
T cd04174           9 PLVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA   87 (232)
T ss_pred             CceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcE
Confidence            5567789999999999999999999999998888898876654 457788999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEE
Q 040481           92 ALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEGL-FFME  157 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~  157 (222)
                      +|+|||++++.+|+.+ ..|+..+.... ...|+++|+||.|+.+            .+.+..+++.+++...++ .|++
T Consensus        88 vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~E  166 (232)
T cd04174          88 VLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLE  166 (232)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEE
Confidence            9999999999999985 89999998765 4679999999999964            256888999999999998 6999


Q ss_pred             EccCCCC-CHHHHHHHHHHHHHHHhh
Q 040481          158 TSALDST-NVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       158 ~sa~~~~-~i~~~~~~i~~~~~~~~~  182 (222)
                      |||++|. ||+++|..++..+++...
T Consensus       167 tSAktg~~~V~e~F~~~~~~~~~~~~  192 (232)
T cd04174         167 CSAFTSEKSIHSIFRSASLLCLNKLS  192 (232)
T ss_pred             ccCCcCCcCHHHHHHHHHHHHHHhcc
Confidence            9999998 899999999998876543

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=3.1e-35  Score=207.78  Aligned_cols=205  Identities=38%  Similarity=0.683  Sum_probs=175.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..+.++++++|++-+|||+|++.++.+.+++.++|+.|++++-..+.+ ++..+++++|||+|++.|.+.++.+|+++-+
T Consensus         5 f~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvg   84 (213)
T KOG0091|consen    5 FHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVG   84 (213)
T ss_pred             eEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccc
Confidence            356789999999999999999999999999999999999988777666 6788999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcE-EEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD-TTVAR-MLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~-iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      +++|||+++++||+.+..|+.+...+.. +..++ .+||+|+||...++++.+++++++..++..|+++||++|.||++.
T Consensus        85 vllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEA  164 (213)
T KOG0091|consen   85 VLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEA  164 (213)
T ss_pred             eEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHH
Confidence            9999999999999999999998877665 44444 567999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhh-hccCCcchhhhhccccceeecccCCCCCcCCCCcccc
Q 040481          170 FEIVIREIYSNVSR-KVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCC  220 (222)
Q Consensus       170 ~~~i~~~~~~~~~~-~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c  220 (222)
                      |+.+.+.++....+ -+--.+.+....+....++..+....+..   +.+||
T Consensus       165 F~mlaqeIf~~i~qGeik~edgw~gvKSsrpn~i~~s~~~~~P~---k~c~C  213 (213)
T KOG0091|consen  165 FDMLAQEIFQAIQQGEIKLEDGWGGVKSSRPNQIPRSPSRKQPS---KPCQC  213 (213)
T ss_pred             HHHHHHHHHHHHhcCceeeeeccccccccCCCcCCCcccccCCC---CCCCC
Confidence            99999999887765 44445566555555555566666555544   45566

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=3.9e-34  Score=212.78  Aligned_cols=164  Identities=50%  Similarity=0.868  Sum_probs=151.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||+++|..+.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            47999999999999999999999988888888888888877788888899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ||++++.+|+.+..|+..+........|+++|+||+|+...+.+..+++.+++...+++++++||++|.|+.++|..++.
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~  161 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAK  161 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999887776677899999999999887788888999999999999999999999999999999998


Q ss_pred             HHHH
Q 040481          176 EIYS  179 (222)
Q Consensus       176 ~~~~  179 (222)
                      .+++
T Consensus       162 ~~~~  165 (166)
T cd04122         162 KIYQ  165 (166)
T ss_pred             HHhh
Confidence            7754

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

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=5.8e-35  Score=210.45  Aligned_cols=172  Identities=37%  Similarity=0.703  Sum_probs=158.4

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .+...+||+++|++|+|||+|++++.+..+...+..+++.++..+.+.+++..+.+++|||+|+++|.++..++|+.+|.
T Consensus         5 ~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDc   84 (210)
T KOG0394|consen    5 RKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADC   84 (210)
T ss_pred             CcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCce
Confidence            45667999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCc--CCCCCHHHHHHHHHHc-CCeEEEEccCCCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHS----DTTVARMLVGNKCDLES--IRNVSTEEGKSLAEAE-GLFFMETSALDST  164 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~iiv~nK~Dl~~--~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~  164 (222)
                      .++|||++++.+|+.+..|..++....    +...|+||+|||+|+.+  .+.++...++.|+... +++|||+||++..
T Consensus        85 Cvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~  164 (210)
T KOG0394|consen   85 CVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEAT  164 (210)
T ss_pred             EEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccc
Confidence            999999999999999999999886554    36799999999999975  3789999999999876 5899999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhh
Q 040481          165 NVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~~~~  183 (222)
                      ||.+.|..+.+.+++....
T Consensus       165 NV~~AFe~ia~~aL~~E~~  183 (210)
T KOG0394|consen  165 NVDEAFEEIARRALANEDR  183 (210)
T ss_pred             cHHHHHHHHHHHHHhccch
Confidence            9999999999988876543

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.1e-35  Score=208.99  Aligned_cols=212  Identities=35%  Similarity=0.642  Sum_probs=181.7

Q ss_pred             CCCCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhh
Q 040481            7 EGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYY   86 (222)
Q Consensus         7 ~~~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   86 (222)
                      +.....+...+||+++|..-+|||+|+-++..+.+...+..+....+..+.+++.+....++||||+|+++|..+-+.+|
T Consensus         4 ~~~~~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYY   83 (218)
T KOG0088|consen    4 ETNVDGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYY   83 (218)
T ss_pred             cccccCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEE
Confidence            34455778899999999999999999999999999888888877788888888988899999999999999999999999


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      +.+|++++|||++|+.||+.+..|..+++......+.++||+||+||.+++.+..+++..++..-++.|+++||+++.||
T Consensus        84 RgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi  163 (218)
T KOG0088|consen   84 RGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGI  163 (218)
T ss_pred             eCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhccC-Ccch-hhhhccccceeecccCCCCCcCCCCccccc
Q 040481          167 KSAFEIVIREIYSNVSRKVLN-SDSY-KAELSLNRVTLVKSETDGSKQTSGYFSCCS  221 (222)
Q Consensus       167 ~~~~~~i~~~~~~~~~~~~~~-s~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  221 (222)
                      .++|..+..+++++...+... +... ..-...++..+..++.+....   .+.||+
T Consensus       164 ~elFe~Lt~~MiE~~s~~qr~~~~~s~qpp~t~r~~~~iD~e~~a~~s---g~~CC~  217 (218)
T KOG0088|consen  164 SELFESLTAKMIEHSSQRQRTRSPLSTQPPSTNRSIRLIDNEAEAERS---GKRCCR  217 (218)
T ss_pred             HHHHHHHHHHHHHHhhhcccccCCcCCCCCCcccchhccCCCcccccc---cCCccC
Confidence            999999999999887654333 2222 222233445555565544443   455886

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=4.9e-34  Score=212.48  Aligned_cols=166  Identities=52%  Similarity=0.940  Sum_probs=152.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.+||+++|++|+|||||++++.+..+...+.++.+.++....+.+++..+.+++||+||++.+...+..+++.+|++|
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i   80 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGII   80 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEE
Confidence            35789999999999999999999999998888899888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+|+.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|.++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i  160 (167)
T cd01867          81 LVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTL  160 (167)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988766779999999999998777788888888999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      ++.+..
T Consensus       161 ~~~~~~  166 (167)
T cd01867         161 AKDIKK  166 (167)
T ss_pred             HHHHHh
Confidence            988764

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

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=8.3e-34  Score=217.06  Aligned_cols=170  Identities=44%  Similarity=0.751  Sum_probs=152.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      +..++|+++|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         4 ~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~ii   83 (199)
T cd04110           4 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVI   83 (199)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEE
Confidence            45799999999999999999999999888778888888887778888888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++++|+.+..|+..+.... ...|++||+||+|+.+...+..+++..++...+++++++||++|.||.++|++|
T Consensus        84 lv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l  162 (199)
T cd04110          84 VVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCI  162 (199)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHH
Confidence            9999999999999999999887654 468999999999998767777888888999999999999999999999999999


Q ss_pred             HHHHHHHhhhh
Q 040481          174 IREIYSNVSRK  184 (222)
Q Consensus       174 ~~~~~~~~~~~  184 (222)
                      +..++.....+
T Consensus       163 ~~~~~~~~~~~  173 (199)
T cd04110         163 TELVLRAKKDN  173 (199)
T ss_pred             HHHHHHhhhcc
Confidence            99988765443

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

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.7e-35  Score=204.60  Aligned_cols=173  Identities=40%  Similarity=0.771  Sum_probs=163.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....+||+++|+.|+|||.|+++++.+.+++....++|+++..+++.++++.+++++|||+|+++|.+.+..+|+++++
T Consensus         3 dykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsaha   82 (213)
T KOG0095|consen    3 DYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHA   82 (213)
T ss_pred             ccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcce
Confidence            34677999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++...+|+-+.+|+.+++.+...++--|+|+||.|+.+.++++....++|++.....|+++||++..|++.+|.
T Consensus        83 lilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~  162 (213)
T KOG0095|consen   83 LILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFL  162 (213)
T ss_pred             EEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHH
Confidence            99999999999999999999999999988888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhh
Q 040481          172 IVIREIYSNVSRK  184 (222)
Q Consensus       172 ~i~~~~~~~~~~~  184 (222)
                      .+.-.+......+
T Consensus       163 ~~a~rli~~ar~~  175 (213)
T KOG0095|consen  163 DLACRLISEARQN  175 (213)
T ss_pred             HHHHHHHHHHHhc
Confidence            8888777665443

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=4e-34  Score=217.34  Aligned_cols=165  Identities=36%  Similarity=0.581  Sum_probs=144.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|++|||||||+++|..+.+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            589999999999999999999888777777766444 3456678888899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHSD---TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~---~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      +++..+|+.+..|+..+.....   ...|+++|+||+|+.+.+.+...+..+++...+++++++||++|.|++++|.+++
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~  159 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV  159 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999988866542   5689999999999987777888888889988999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 040481          175 REIYSNVSR  183 (222)
Q Consensus       175 ~~~~~~~~~  183 (222)
                      +.+.++...
T Consensus       160 ~~l~~~~~~  168 (190)
T cd04144         160 RALRQQRQG  168 (190)
T ss_pred             HHHHHhhcc
Confidence            887655433

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras 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 Ras proteins.

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=6.7e-34  Score=216.25  Aligned_cols=165  Identities=47%  Similarity=0.769  Sum_probs=147.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      +||+++|++|||||||+++|.+..+.. .+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            489999999999999999999988754 5667777777766777888889999999999999999899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ||++++.+|+.+..|+..+.......+|+++|+||.|+...+.+..++...++..++++|+++||++|.|++++|.+|++
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~  160 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAK  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999998877668999999999999876777788888899999999999999999999999999999


Q ss_pred             HHHHHh
Q 040481          176 EIYSNV  181 (222)
Q Consensus       176 ~~~~~~  181 (222)
                      .+....
T Consensus       161 ~~~~~~  166 (191)
T cd04112         161 ELKHRK  166 (191)
T ss_pred             HHHHhc
Confidence            887653

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.

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.9e-34  Score=200.33  Aligned_cols=175  Identities=43%  Similarity=0.775  Sum_probs=164.6

Q ss_pred             CCCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc
Q 040481            8 GGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR   87 (222)
Q Consensus         8 ~~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   87 (222)
                      +..+..++.+|++|+|++.+|||+|+.++.+..+...+..+.|+++.++++--..+.+.+++|||+|++.+...+.++|+
T Consensus        13 s~dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyR   92 (193)
T KOG0093|consen   13 SIDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYR   92 (193)
T ss_pred             cccccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhh
Confidence            34467788899999999999999999999999999999999999999998877778899999999999999999999999


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      +++++|++||+++.+||..+..|...+..+.....|+|+++||+|+.+++.++.+..+.+++++|..||++||+.+.||.
T Consensus        93 gamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk  172 (193)
T KOG0093|consen   93 GAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVK  172 (193)
T ss_pred             ccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhh
Q 040481          168 SAFEIVIREIYSNVS  182 (222)
Q Consensus       168 ~~~~~i~~~~~~~~~  182 (222)
                      ++|+.++..+.+...
T Consensus       173 ~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  173 QVFERLVDIICDKMS  187 (193)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999998887776544

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=9e-34  Score=213.51  Aligned_cols=163  Identities=33%  Similarity=0.558  Sum_probs=145.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...+||+++|+++||||||++++..+.+...+.|+.+..+ ...+.+++..+.+++|||+|++.+..++..+++.+|++|
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~i   81 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   81 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEE
Confidence            4568999999999999999999999999888888887555 356778899999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEEc
Q 040481           94 IVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEGL-FFMETS  159 (222)
Q Consensus        94 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~s  159 (222)
                      +|||++++.+|+.+ ..|+..+.... ...|+++||||.||.+            .+.+..+++.++++..++ +|++||
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~S  160 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  160 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECC
Confidence            99999999999998 79999998765 4689999999999964            245889999999999996 899999


Q ss_pred             cCCCCC-HHHHHHHHHHHHH
Q 040481          160 ALDSTN-VKSAFEIVIREIY  178 (222)
Q Consensus       160 a~~~~~-i~~~~~~i~~~~~  178 (222)
                      |++|.| |+++|..+++.++
T Consensus       161 Ak~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         161 ALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             cCCCCCCHHHHHHHHHHHHh
Confidence            999998 9999999888544

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

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=1.2e-33  Score=214.48  Aligned_cols=165  Identities=39%  Similarity=0.601  Sum_probs=146.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..+||+++|++|||||||++++.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+..++..+++.+|++|+
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iil   82 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLC   82 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEE
Confidence            358999999999999999999999888777777766554 4566778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+..... ..+|+++|+||.|+.+.+.+..+++..++...+++++++||++|.|+.++|.++
T Consensus        83 v~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l  162 (189)
T PTZ00369         83 VYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYEL  162 (189)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHH
Confidence            9999999999999999988876543 578999999999997767777778888888889999999999999999999999


Q ss_pred             HHHHHHH
Q 040481          174 IREIYSN  180 (222)
Q Consensus       174 ~~~~~~~  180 (222)
                      ++.+.+.
T Consensus       163 ~~~l~~~  169 (189)
T PTZ00369        163 VREIRKY  169 (189)
T ss_pred             HHHHHHH
Confidence            9887654

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=3.4e-33  Score=215.36  Aligned_cols=169  Identities=47%  Similarity=0.854  Sum_probs=151.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      .+||+++|++|||||||+++|.+..+...+.++.+.++....+.+ ++..+.+++||++|++.+...+..+++.+|++|+
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            479999999999999999999999888888888888887777766 4667889999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+..... ...|++||+||.|+.+...+..++...++..++++++++||++|.|++++|++|
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l  161 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELL  161 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999999998876543 457889999999998877888888999999999999999999999999999999


Q ss_pred             HHHHHHHhhhh
Q 040481          174 IREIYSNVSRK  184 (222)
Q Consensus       174 ~~~~~~~~~~~  184 (222)
                      ++.+++.....
T Consensus       162 ~~~~~~~~~~~  172 (211)
T cd04111         162 TQEIYERIKRG  172 (211)
T ss_pred             HHHHHHHhhcC
Confidence            99888775443

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.

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=1e-33  Score=211.97  Aligned_cols=160  Identities=31%  Similarity=0.594  Sum_probs=143.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++++|||+|+.++..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++.+..++..+++.+|++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            7999999999999999999999999888888887655 445677888999999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCC----------CCCHHHHHHHHHHcCC-eEEEEccCCCC
Q 040481           97 DITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESIR----------NVSTEEGKSLAEAEGL-FFMETSALDST  164 (222)
Q Consensus        97 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~sa~~~~  164 (222)
                      |++++.||+.+ ..|+..+.... .++|++|||||+|+.+.+          .+..+++..+++..++ .|++|||++|.
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~  159 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQ  159 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCccc
Confidence            99999999998 68999997765 468999999999996542          4788899999999998 59999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREIY  178 (222)
Q Consensus       165 ~i~~~~~~i~~~~~  178 (222)
                      ||+++|..+++.+.
T Consensus       160 nV~~~F~~~~~~~~  173 (176)
T cd04133         160 NVKAVFDAAIKVVL  173 (176)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998763

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=1.9e-33  Score=210.36  Aligned_cols=164  Identities=35%  Similarity=0.515  Sum_probs=146.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|.+|||||||++++..+.+...+.++.+..+ ...+.+++..+.+.+||+||.+.+..++..+++.+|++|+|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            47999999999999999999999998877788876444 44567788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...+++..+++|++|||++|.||+++|.+++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~  160 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLV  160 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHH
Confidence            99999999999999988887653 35799999999999987778888899999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          175 REIYSN  180 (222)
Q Consensus       175 ~~~~~~  180 (222)
                      +.+...
T Consensus       161 ~~~~~~  166 (172)
T cd04141         161 REIRRK  166 (172)
T ss_pred             HHHHHh
Confidence            987753

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=3.1e-33  Score=207.85  Aligned_cols=163  Identities=50%  Similarity=0.872  Sum_probs=149.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||++++.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            57999999999999999999999988877788888888888888888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ||++++++|..+..|+..+......+.|+++|+||.|+.....+..+++..++...+++++++||++|.|++++|..|++
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~  161 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAR  161 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHH
Confidence            99999999999999999998776567899999999999877778888889999999999999999999999999999998


Q ss_pred             HHH
Q 040481          176 EIY  178 (222)
Q Consensus       176 ~~~  178 (222)
                      .+.
T Consensus       162 ~~~  164 (166)
T cd01869         162 EIK  164 (166)
T ss_pred             HHH
Confidence            775

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

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=2.2e-33  Score=216.72  Aligned_cols=164  Identities=30%  Similarity=0.509  Sum_probs=140.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|.++||||||+++|..+.+.. +.++.+.++....+    ..+.+.+||++|++.+..++..+++.+|++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999998864 46666655543332    4577899999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-------------------CCCCCHHHHHHHHHHcC-----
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES-------------------IRNVSTEEGKSLAEAEG-----  152 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~-------------------~~~~~~~~~~~~~~~~~-----  152 (222)
                      |++++++|+.+..|+..+.......+|++||+||+|+.+                   .+.+..+++..+++..+     
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~  155 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKML  155 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccc
Confidence            999999999999888877766556789999999999975                   57788899999999876     


Q ss_pred             ---------CeEEEEccCCCCCHHHHHHHHHHHHHHHhhhhc
Q 040481          153 ---------LFFMETSALDSTNVKSAFEIVIREIYSNVSRKV  185 (222)
Q Consensus       153 ---------~~~~~~sa~~~~~i~~~~~~i~~~~~~~~~~~~  185 (222)
                               ++|++|||++|.||+++|..+++.+++....+.
T Consensus       156 ~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~  197 (220)
T cd04126         156 DEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQR  197 (220)
T ss_pred             cccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhh
Confidence                     689999999999999999999998887665543

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. 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-bo

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=2.6e-33  Score=216.80  Aligned_cols=164  Identities=33%  Similarity=0.552  Sum_probs=148.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC-eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG-KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+.+++ ..+.+++||++|++.+...+..+++.+|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            4899999999999999999999998888899998888888887754 578999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSD---TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      ||++++++|+.+..|+..+.....   ...|+++|+||.|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~  160 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQ  160 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999999999877643   35688999999999877788888899999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 040481          173 VIREIYSN  180 (222)
Q Consensus       173 i~~~~~~~  180 (222)
                      ++..+...
T Consensus       161 l~~~l~~~  168 (215)
T cd04109         161 LAAELLGV  168 (215)
T ss_pred             HHHHHHhc
Confidence            99988764

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=2.1e-33  Score=207.87  Aligned_cols=160  Identities=42%  Similarity=0.791  Sum_probs=147.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      ++|+++|++|+|||||++++.++.+.+.+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.+|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            48999999999999999999999998888888888888788888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+|+.+..|+..+.......+|+++|+||.|+...+.+..+++..+++.++++|+++||++|.|++++|.+|++.
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            99999999999999999887766679999999999998878888899999999999999999999999999999999864

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

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=8.4e-33  Score=213.11  Aligned_cols=169  Identities=51%  Similarity=0.902  Sum_probs=154.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.+||+|+|++++|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.+|++|
T Consensus         4 ~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~v   83 (210)
T PLN03108          4 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGAL   83 (210)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEE
Confidence            45689999999999999999999999888888888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+|+.+..|+..+.......+|+++|+||.|+...+.+..++..+++..++++++++||+++.||+++|.++
T Consensus        84 lv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l  163 (210)
T PLN03108         84 LVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKT  163 (210)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999988877666678999999999998777888889999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q 040481          174 IREIYSNVS  182 (222)
Q Consensus       174 ~~~~~~~~~  182 (222)
                      ++.++....
T Consensus       164 ~~~~~~~~~  172 (210)
T PLN03108        164 AAKIYKKIQ  172 (210)
T ss_pred             HHHHHHHhh
Confidence            999887654

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=100.00  E-value=3.7e-33  Score=206.48  Aligned_cols=161  Identities=39%  Similarity=0.724  Sum_probs=153.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|+++||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||++|++.+......++..+|++|+|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999999999998899999999999999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ++++.+|+.+..|+..+........|++||+||.|+.+.+.+..++++.++..++++|+++||+++.||.++|..+++.+
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i  160 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKI  160 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            99999999999999999998876789999999999998889999999999999999999999999999999999999887


Q ss_pred             H
Q 040481          178 Y  178 (222)
Q Consensus       178 ~  178 (222)
                      +
T Consensus       161 ~  161 (162)
T PF00071_consen  161 L  161 (162)
T ss_dssp             H
T ss_pred             h
Confidence            5

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 ....

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=5.8e-33  Score=206.29  Aligned_cols=162  Identities=46%  Similarity=0.805  Sum_probs=147.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|+++||||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|++.+...+..+++.+|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999988888888887777777777788899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+|+.+..|+..+........|+++|+||+|+.+.+.+..++..+++...+++++++||++|.|+.++|++++..
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  161 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDI  161 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            99999999999999999987766678999999999998777777788888999999999999999999999999999886


Q ss_pred             HH
Q 040481          177 IY  178 (222)
Q Consensus       177 ~~  178 (222)
                      +.
T Consensus       162 ~~  163 (165)
T cd01865         162 IC  163 (165)
T ss_pred             HH
Confidence            54

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. 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 promot

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=5e-33  Score=209.36  Aligned_cols=166  Identities=40%  Similarity=0.755  Sum_probs=149.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC----------CeEEEEEEEeCCCcchhhhhHHH
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID----------GKEVKAQIWDTAGQERFRAVTSA   84 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~i~D~~G~~~~~~~~~~   84 (222)
                      +.+||+++|++|||||||++++.+..+...+.++.+.++....+.+.          +..+.+.+||+||++.+...+..
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTA   82 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHH
Confidence            56899999999999999999999999888888888877776666654          45688999999999999999999


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      +++.+|++|+|||++++++|..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++.+++...+++++++||++|
T Consensus        83 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~  162 (180)
T cd04127          83 FFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATG  162 (180)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCC
Confidence            99999999999999999999999999998876542 46899999999999877788888899999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIYSN  180 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~~  180 (222)
                      .|++++|+++++.++++
T Consensus       163 ~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         163 TNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CCHHHHHHHHHHHHHhh
Confidence            99999999999887754

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

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=4.3e-33  Score=209.32  Aligned_cols=160  Identities=31%  Similarity=0.551  Sum_probs=142.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||++++.++.+...+.|+.+..+. ..+.+++..+.+++|||+|++.+..+...+++.+|++|+||
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvf   80 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICF   80 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEE
Confidence            68999999999999999999999998888888765553 56778889999999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEEccCC
Q 040481           97 DITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEGL-FFMETSALD  162 (222)
Q Consensus        97 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~  162 (222)
                      |++++.||+.+ ..|+..+.... ...|+++||||.||.+            .+.+..+++.+++...++ +|++|||++
T Consensus        81 dit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~  159 (178)
T cd04131          81 DISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFT  159 (178)
T ss_pred             ECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCc
Confidence            99999999996 78999998765 4689999999999964            245888999999999997 799999999


Q ss_pred             CCC-HHHHHHHHHHHHH
Q 040481          163 STN-VKSAFEIVIREIY  178 (222)
Q Consensus       163 ~~~-i~~~~~~i~~~~~  178 (222)
                      |++ |+++|..+++..+
T Consensus       160 ~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         160 SEKSVRDIFHVATMACL  176 (178)
T ss_pred             CCcCHHHHHHHHHHHHh
Confidence            995 9999999988544

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. 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. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.3e-33  Score=197.63  Aligned_cols=172  Identities=46%  Similarity=0.787  Sum_probs=163.5

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ...++.+|++++|+.|+|||.|++++..+.+......++|+++....+++.++.++++||||+|++.|.+..+.+|+.+.
T Consensus         4 EtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAA   83 (214)
T KOG0086|consen    4 ETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAA   83 (214)
T ss_pred             hhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhcccc
Confidence            34678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +.++|||++++++|+.+..|+..++......+-+++++||.||.+.+++...++..|+.+..+.+.++||++|+||.+.|
T Consensus        84 GAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaF  163 (214)
T KOG0086|consen   84 GALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAF  163 (214)
T ss_pred             ceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHH
Confidence            99999999999999999999999999988888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q 040481          171 EIVIREIYSNVS  182 (222)
Q Consensus       171 ~~i~~~~~~~~~  182 (222)
                      -.....++...+
T Consensus       164 l~c~~tIl~kIE  175 (214)
T KOG0086|consen  164 LKCARTILNKIE  175 (214)
T ss_pred             HHHHHHHHHHHh
Confidence            888888777655

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=7e-33  Score=205.79  Aligned_cols=162  Identities=31%  Similarity=0.643  Sum_probs=148.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+..++..+.+++||+||++.+..++..+++.+|++|+||
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999988888899888888888888889999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCC-----CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSD-----TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~-----~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |++++.+|+.+..|+..+.....     ...|+++|+||+|+.+...+..++...++...+++++++||++|.|+.++|+
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  160 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQ  160 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999877654     4689999999999976667778888888888899999999999999999999


Q ss_pred             HHHHHHH
Q 040481          172 IVIREIY  178 (222)
Q Consensus       172 ~i~~~~~  178 (222)
                      +|++.++
T Consensus       161 ~l~~~l~  167 (168)
T cd04119         161 TLFSSIV  167 (168)
T ss_pred             HHHHHHh
Confidence            9998775

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.

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=8.5e-33  Score=205.24  Aligned_cols=163  Identities=67%  Similarity=1.084  Sum_probs=150.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..+||+++|+++||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.++++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            45899999999999999999999999888888888888888888888888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |||++++.+|+.+.+|+..+......+.|+++|+||.|+...+.+..++...++...+++++++||++|.|++++|++++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  161 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLL  161 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999999887766789999999999987777888888889988899999999999999999999998


Q ss_pred             HHH
Q 040481          175 REI  177 (222)
Q Consensus       175 ~~~  177 (222)
                      ..+
T Consensus       162 ~~i  164 (165)
T cd01868         162 TEI  164 (165)
T ss_pred             HHh
Confidence            765

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

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=7.9e-33  Score=210.32  Aligned_cols=162  Identities=30%  Similarity=0.541  Sum_probs=142.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|+.+||||||++++..+.+...+.++.+..+ ...+.+++..+.+++||++|++.+..++..+++.+|++|+|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            48999999999999999999999999888888877554 34456788899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEEccC
Q 040481           96 YDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEG-LFFMETSAL  161 (222)
Q Consensus        96 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~  161 (222)
                      ||++++.+|+.+. .|+..+.... ..+|++||+||.||.+.            ..+..+++..++..++ ++|+++||+
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk  160 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSAL  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCC
Confidence            9999999999996 6888887654 46899999999999653            2366778889999988 589999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~~~  179 (222)
                      +|.||+++|.++++.+..
T Consensus       161 ~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         161 NQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CCCCHHHHHHHHHHHHhc
Confidence            999999999999987753

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=1.6e-32  Score=204.47  Aligned_cols=166  Identities=55%  Similarity=0.956  Sum_probs=151.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      .+.+||+++|+++||||||++++.+..+...+.++.+.++....+..++....+.+||+||++.+......+++.+|+++
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il   81 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   81 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence            35689999999999999999999999888888888888888888888888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+|+.+..|+..+......++|+++|+||.|+.+...+..++++.++...++.++++||+++.|++++|.++
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~  161 (168)
T cd01866          82 LVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINT  161 (168)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988766779999999999998767788888888999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      ++.+++
T Consensus       162 ~~~~~~  167 (168)
T cd01866         162 AKEIYE  167 (168)
T ss_pred             HHHHHh
Confidence            988764

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

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=3.7e-32  Score=206.93  Aligned_cols=164  Identities=33%  Similarity=0.573  Sum_probs=143.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      +||+++|+++||||||+++|.++.+.. .+.++.+.++....+.+++..+.+.+||++|.+.+..++..++..+|++|+|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            489999999999999999999988764 5677777777777788899899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC----CCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI----RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      ||++++.+|+.+..|+..+.... .+.|+++|+||.|+.+.    ..+..+++..++...+++++++||+++.|++++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  159 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ  159 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999887653 46899999999998532    34555677788888899999999999999999999


Q ss_pred             HHHHHHHHHh
Q 040481          172 IVIREIYSNV  181 (222)
Q Consensus       172 ~i~~~~~~~~  181 (222)
                      ++++.+....
T Consensus       160 ~i~~~~~~~~  169 (193)
T cd04118         160 KVAEDFVSRA  169 (193)
T ss_pred             HHHHHHHHhc
Confidence            9999887544

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=2.9e-32  Score=210.58  Aligned_cols=164  Identities=29%  Similarity=0.506  Sum_probs=142.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+|+|++|||||+|+++|..+.+...+.|+.+..+. ..+.+++..+.+.+||++|++.|...+..+++.+|++|+||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvf   80 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICF   80 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEE
Confidence            69999999999999999999999998888898876654 56678899999999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEccCC
Q 040481           97 DITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETSALD  162 (222)
Q Consensus        97 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~  162 (222)
                      |++++++|+.+ ..|...+.... ..+|++||+||+|+.+.            ..+..++...+++..++ .|+||||++
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~~-~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~  159 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEFC-PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRS  159 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCc
Confidence            99999999999 56777665544 56899999999999642            23677889999999995 899999999


Q ss_pred             CCC-HHHHHHHHHHHHHHHhh
Q 040481          163 STN-VKSAFEIVIREIYSNVS  182 (222)
Q Consensus       163 ~~~-i~~~~~~i~~~~~~~~~  182 (222)
                      +.+ |+++|..++...+....
T Consensus       160 ~~~~V~~~F~~~~~~~~~~~~  180 (222)
T cd04173         160 SERSVRDVFHVATVASLGRGH  180 (222)
T ss_pred             CCcCHHHHHHHHHHHHHhccC
Confidence            885 99999999987765443

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

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=1.6e-32  Score=207.02  Aligned_cols=163  Identities=31%  Similarity=0.564  Sum_probs=143.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|+.|||||||++++.++.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            58999999999999999999999998888999998888888888998999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-----CCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES-----IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |++++.+|+.+..|+..+........| ++|+||+|+..     ......++..+++...+++++++||++|.|++++|.
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~  159 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFK  159 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999998876555567 67899999852     111224567778888899999999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          172 IVIREIYSN  180 (222)
Q Consensus       172 ~i~~~~~~~  180 (222)
                      ++++.+++.
T Consensus       160 ~l~~~l~~~  168 (182)
T cd04128         160 IVLAKAFDL  168 (182)
T ss_pred             HHHHHHHhc
Confidence            999988753

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=2.5e-32  Score=202.80  Aligned_cols=162  Identities=50%  Similarity=0.882  Sum_probs=146.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|++|+|||||+++|..+.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            56899999999999999999999988887777888878888888888888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+......++|+++|+||+|+...+....+.+..++...+. .++++||++|.|++++|.++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l  161 (165)
T cd01864          82 AYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLM  161 (165)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999877667899999999999987777788888888888875 68999999999999999998


Q ss_pred             HHH
Q 040481          174 IRE  176 (222)
Q Consensus       174 ~~~  176 (222)
                      ++.
T Consensus       162 ~~~  164 (165)
T cd01864         162 ATE  164 (165)
T ss_pred             HHh
Confidence            865

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=2.8e-32  Score=204.48  Aligned_cols=160  Identities=28%  Similarity=0.494  Sum_probs=139.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      ++||+++|++|||||||++++..+.+...+.|+.+..+. ..+.+++..+.+.+||++|++.+...+..+++.+|++|+|
T Consensus         1 ~~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv   79 (175)
T cd01874           1 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   79 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEE
Confidence            479999999999999999999999988888888765554 3566788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEEccC
Q 040481           96 YDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEG-LFFMETSAL  161 (222)
Q Consensus        96 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~  161 (222)
                      ||++++.+|+.+. .|+..+.... .++|+++|+||.|+.+.            +.+..+++.+++...+ +.|+++||+
T Consensus        80 ~d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~  158 (175)
T cd01874          80 FSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSAL  158 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCC
Confidence            9999999999996 5988887654 46899999999998643            4577788888998887 689999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIREI  177 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~  177 (222)
                      +|.|++++|+.++..+
T Consensus       159 tg~~v~~~f~~~~~~~  174 (175)
T cd01874         159 TQKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999988754

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=4.9e-32  Score=209.95  Aligned_cols=165  Identities=29%  Similarity=0.522  Sum_probs=146.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...+||+++|++|||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            67799999999999999999999999988888899888888777777888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+|+.+..|+..+.... ..+|+++|+||+|+.+ +.+..+++ .++...++.|+++||++|.|+.++|.+|
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l  167 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYL  167 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHH
Confidence            9999999999999999999998765 5689999999999964 33444444 6778888999999999999999999999


Q ss_pred             HHHHHHHh
Q 040481          174 IREIYSNV  181 (222)
Q Consensus       174 ~~~~~~~~  181 (222)
                      ++.+++..
T Consensus       168 ~~~~~~~~  175 (219)
T PLN03071        168 ARKLAGDP  175 (219)
T ss_pred             HHHHHcCc
Confidence            99887553

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=4.1e-32  Score=200.78  Aligned_cols=160  Identities=51%  Similarity=0.854  Sum_probs=147.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+||
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            48999999999999999999999988888888888888788888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+|..+..|+..+......++|+++|+||.|+.....+..+++..++...++.++++||+++.|+.++|.++++.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999999998877766789999999999998777788888999999999999999999999999999998875

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

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=1.8e-31  Score=206.01  Aligned_cols=174  Identities=46%  Similarity=0.750  Sum_probs=149.4

Q ss_pred             CCCCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhh
Q 040481            7 EGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYY   86 (222)
Q Consensus         7 ~~~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   86 (222)
                      +...++....+||+++|++|||||||+++|++..+ ..+.++.+.++....+.+++..+.+.+||+||++.+..++..++
T Consensus         5 ~~~~~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~   83 (211)
T PLN03118          5 SGQSSGYDLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYY   83 (211)
T ss_pred             cccccccCcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHH
Confidence            33445666779999999999999999999998876 35567777788777888888889999999999999999999999


Q ss_pred             cCCCEEEEEEECCChhhHHHHHH-HHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           87 RGAVGALIVYDITRRTTFDSISR-WLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~-~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      +.+|++|+|||++++++|+.+.. |...+.... ....|+++|+||.|+.....+..++...++...++.|+++||+++.
T Consensus        84 ~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~  163 (211)
T PLN03118         84 RNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRE  163 (211)
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCC
Confidence            99999999999999999999965 666665443 2567999999999998767777788888888899999999999999


Q ss_pred             CHHHHHHHHHHHHHHHh
Q 040481          165 NVKSAFEIVIREIYSNV  181 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~~  181 (222)
                      |++++|.+|...+.+..
T Consensus       164 ~v~~l~~~l~~~~~~~~  180 (211)
T PLN03118        164 NVEQCFEELALKIMEVP  180 (211)
T ss_pred             CHHHHHHHHHHHHHhhh
Confidence            99999999999887653

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=4.5e-32  Score=200.76  Aligned_cols=160  Identities=37%  Similarity=0.609  Sum_probs=140.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||++++..+.+...+.++.+ +.....+.+++..+.+.+||+||++.+...+..+++.+|++++||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            6999999999999999999999888777777765 444566777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |++++.+|+.+..|+..+..... .++|+++|+||+|+.+.+.+..++...++..++++++++||++|.|+.++|.++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd04136          81 SITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVR  160 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Confidence            99999999999999988876543 57899999999999776667777778888888899999999999999999999987


Q ss_pred             HH
Q 040481          176 EI  177 (222)
Q Consensus       176 ~~  177 (222)
                      .+
T Consensus       161 ~~  162 (163)
T cd04136         161 QI  162 (163)
T ss_pred             hc
Confidence            54

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=1.1e-31  Score=198.84  Aligned_cols=163  Identities=60%  Similarity=0.961  Sum_probs=149.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++++|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            58999999999999999999999887777788888888888888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+++.+..|+..+.......+|+++|+||+|+.....+..+.+..++...+++++++|+++|.|++++|+.+++.
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~  160 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELARE  160 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999888776789999999999998767778888888999999999999999999999999999988


Q ss_pred             HHH
Q 040481          177 IYS  179 (222)
Q Consensus       177 ~~~  179 (222)
                      +.+
T Consensus       161 ~~~  163 (164)
T smart00175      161 ILK  163 (164)
T ss_pred             Hhh
Confidence            764

Rab GTPases are implicated in vesicle trafficking.

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=8.5e-32  Score=199.72  Aligned_cols=161  Identities=35%  Similarity=0.592  Sum_probs=141.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      ++||+++|++|||||||++++..+.+...+.++++..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++++|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            36999999999999999999998887777777766444 35667788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ||+++..+|+.+..|+..+.... ..+.|+++|+||+|+.+...+..++...+++.++++++++||++|.|++++|.+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  159 (164)
T cd04175          80 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLV  159 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999998887653 36789999999999987666777777888888899999999999999999999998


Q ss_pred             HHH
Q 040481          175 REI  177 (222)
Q Consensus       175 ~~~  177 (222)
                      +.+
T Consensus       160 ~~l  162 (164)
T cd04175         160 RQI  162 (164)
T ss_pred             HHh
Confidence            755

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=1.1e-31  Score=203.25  Aligned_cols=165  Identities=30%  Similarity=0.515  Sum_probs=140.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      +||+++|++|||||||+++|.++.+...+.++.+.++.. .+... +..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            589999999999999999999999887777776665543 34454 6788899999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC----CCCCHHHHHHHHHHcCC-eEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI----RNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~  169 (222)
                      ||++++.+|+.+. .|+..+.... .+.|+++|+||.|+...    +.+..+++.+++...++ +++++||++|.|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHH
Confidence            9999999999995 5888776543 46899999999999643    35667888899999988 8999999999999999


Q ss_pred             HHHHHHHHHHHhhh
Q 040481          170 FEIVIREIYSNVSR  183 (222)
Q Consensus       170 ~~~i~~~~~~~~~~  183 (222)
                      |..+++.+.....+
T Consensus       159 f~~l~~~~~~~~~~  172 (187)
T cd04132         159 FDTAIEEALKKEGK  172 (187)
T ss_pred             HHHHHHHHHhhhhh
Confidence            99999988765443

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. 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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=1.8e-31  Score=199.20  Aligned_cols=162  Identities=36%  Similarity=0.636  Sum_probs=143.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|++|||||||++++.++.+...+.++.+.++....+.+++..+.+++||+||++.+...+..+++.+|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            79999999999999999999999988888998888887888888888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRN--VSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ++++++|+.+..|+..+.... ....|+++|+||.|+.+...  ...+++..++..++++++++||++|.|++++|..++
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~  161 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVA  161 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999876543 34578899999999965433  345667778888899999999999999999999999


Q ss_pred             HHHHH
Q 040481          175 REIYS  179 (222)
Q Consensus       175 ~~~~~  179 (222)
                      ..+.+
T Consensus       162 ~~~~~  166 (170)
T cd04108         162 ALTFE  166 (170)
T ss_pred             HHHHH
Confidence            87764

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=1.2e-31  Score=198.31  Aligned_cols=159  Identities=34%  Similarity=0.638  Sum_probs=143.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC--CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID--GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +||+++|++++|||||++++.++.+...+.++.+.++....+.+.  +..+.+++||+||++.+...+..+++.+|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            489999999999999999999998888888888888777777776  778899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |||++++++|+.+..|+..+.... .++|+++|+||.|+.....+..+++..++...+++++++||++|.|++++|++|.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999999887644 4689999999999987777888888899999999999999999999999999887


Q ss_pred             HH
Q 040481          175 RE  176 (222)
Q Consensus       175 ~~  176 (222)
                      ..
T Consensus       160 ~~  161 (162)
T cd04106         160 EK  161 (162)
T ss_pred             Hh
Confidence            53

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

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=1.5e-31  Score=198.89  Aligned_cols=160  Identities=30%  Similarity=0.597  Sum_probs=140.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++++.+.+...+.++.+.++....+..++..+.+.+||++|++.+...+..++..+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            48999999999999999999988887778888887877777777888899999999999999888899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+|+.+..|+..+..... ++|+++|+||+|+.+ +.... ...+++...+++++++||++|.|++++|.+|++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  157 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKD-RKVKA-KQITFHRKKNLQYYEISAKSNYNFEKPFLWLARK  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhccc-ccCCH-HHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHH
Confidence            99999999999999999987764 799999999999973 33333 3456777788999999999999999999999988


Q ss_pred             HHH
Q 040481          177 IYS  179 (222)
Q Consensus       177 ~~~  179 (222)
                      +.+
T Consensus       158 ~~~  160 (166)
T cd00877         158 LLG  160 (166)
T ss_pred             HHh
Confidence            864

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

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=3.1e-31  Score=197.83  Aligned_cols=163  Identities=40%  Similarity=0.719  Sum_probs=144.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      +...+||+++|+++||||||++++.++.+...+.++.+.++....+.+++..+.+++||+||++.+..++..+++.+|++
T Consensus         2 ~~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~   81 (170)
T cd04116           2 KSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCC   81 (170)
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEE
Confidence            34569999999999999999999999988887778888777777888899999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEEccCCCCCHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHS----DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVK  167 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~  167 (222)
                      |+|||++++.+|+.+..|+..+....    ..++|+++|+||.|+. .+.+..+++.+++..++ ++++++||++|.|+.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~  160 (170)
T cd04116          82 LLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVA  160 (170)
T ss_pred             EEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHH
Confidence            99999999999999999998776543    2568999999999987 45677788888998887 579999999999999


Q ss_pred             HHHHHHHHH
Q 040481          168 SAFEIVIRE  176 (222)
Q Consensus       168 ~~~~~i~~~  176 (222)
                      ++|..+++.
T Consensus       161 ~~~~~~~~~  169 (170)
T cd04116         161 AAFEEAVRR  169 (170)
T ss_pred             HHHHHHHhh
Confidence            999998864

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

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=2.1e-31  Score=197.31  Aligned_cols=161  Identities=36%  Similarity=0.577  Sum_probs=141.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|+|||||++++..+.+...+.++.+ +.....+.+++..+.+++||+||.+.+..++..+++.+|++|+|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            37999999999999999999999988777777654 45556777788888899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ||++++.+|+.+..|+..+..... .++|+++|+||+|+.....+...+...++...+++++++||++|.|+.++|.+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999888876543 6789999999999976666777777888888889999999999999999999988


Q ss_pred             HHH
Q 040481          175 REI  177 (222)
Q Consensus       175 ~~~  177 (222)
                      +.+
T Consensus       160 ~~l  162 (163)
T cd04176         160 RQM  162 (163)
T ss_pred             Hhc
Confidence            654

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=3.5e-31  Score=195.65  Aligned_cols=160  Identities=41%  Similarity=0.746  Sum_probs=145.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      .||+++|+++||||||+++|++..+...+.++.+.++....+..++..+.+++||+||+..+...+..+++.+|++|+||
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            38999999999999999999999888888888888888888888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+|+.+..|+..+......+.|+++|+||.|+.+......++...++...+++++++||+++.|++++|.++.+.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            99999999999999998877665578999999999997667778888888888889999999999999999999998874

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER 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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=3e-31  Score=196.69  Aligned_cols=161  Identities=43%  Similarity=0.651  Sum_probs=140.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||++++.+..+...+.++.+ +.....+.+++..+.+.+||+||++.+...+..+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            4899999999999999999999888777777655 333455667788899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |++++++|+.+..|+..+..... ...|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+++++
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  159 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHH
Confidence            99999999999999888766533 46899999999999876677778888889889999999999999999999999987


Q ss_pred             HHH
Q 040481          176 EIY  178 (222)
Q Consensus       176 ~~~  178 (222)
                      .+.
T Consensus       160 ~~~  162 (164)
T smart00173      160 EIR  162 (164)
T ss_pred             HHh
Confidence            654

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=5.9e-31  Score=194.82  Aligned_cols=162  Identities=46%  Similarity=0.819  Sum_probs=147.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            37999999999999999999999998777778888778888888899999999999999999988899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      +|++++.+|+.+..|+..+.......+|+++++||+|+........++...++...+++++++||++|.|+.++|+++++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAK  160 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999988876677899999999999866777888888889998999999999999999999999988


Q ss_pred             HH
Q 040481          176 EI  177 (222)
Q Consensus       176 ~~  177 (222)
                      .+
T Consensus       161 ~l  162 (163)
T cd01860         161 KL  162 (163)
T ss_pred             Hh
Confidence            65

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=4.1e-31  Score=197.29  Aligned_cols=162  Identities=43%  Similarity=0.790  Sum_probs=145.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh-hhHHHhhcCCCEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-AVTSAYYRGAVGALI   94 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~vi~   94 (222)
                      .++|+++|++|||||||++++....+...+.++.+.++....+.+++..+.+.+||++|++.+. ..+..+++.+|++|+
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~   81 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEE
Confidence            5799999999999999999999988887778888888888888889989999999999998886 578888999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCC---CCCHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALD---STNVKSAF  170 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~~~  170 (222)
                      |||++++.+|..+..|+..+.... ...+|+++|+||+|+...+.+..+++..++...+++|+++||++   +.++.++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f  161 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIF  161 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHH
Confidence            999999999999999999887754 36799999999999988788888888899999999999999999   89999999


Q ss_pred             HHHHHHH
Q 040481          171 EIVIREI  177 (222)
Q Consensus       171 ~~i~~~~  177 (222)
                      ..+++.+
T Consensus       162 ~~l~~~~  168 (170)
T cd04115         162 MTLAHKL  168 (170)
T ss_pred             HHHHHHh
Confidence            9888755

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

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=4.1e-31  Score=195.65  Aligned_cols=161  Identities=34%  Similarity=0.618  Sum_probs=139.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||++++.+..+.+.+.++.+.++....+.+++..+.+.+||++|++.+...+..+++.+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999887777777676666666777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+++.+..|+..+.... ..+|+++|+||.|+...   ..++...++...+++++++||++|.|++++|+.+++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKL  156 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            9999999999999999987653 45899999999998532   1334556777778999999999999999999999988


Q ss_pred             HHHHh
Q 040481          177 IYSNV  181 (222)
Q Consensus       177 ~~~~~  181 (222)
                      +.+++
T Consensus       157 ~~~~~  161 (161)
T cd04124         157 AVSYK  161 (161)
T ss_pred             HHhcC
Confidence            87653

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain 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-b

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=3.7e-31  Score=196.62  Aligned_cols=158  Identities=28%  Similarity=0.444  Sum_probs=137.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||++++.++.+...+.++.+..+ ...+.++...+.+++||+||++.+..++..+++.+|++|+||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999988777777765433 444556777889999999999999988889999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS---DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~---~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |++++++|+.+..|+..+....   ..++|+++|+||+|+...+.+..+++..++...++.++++||++|.|++++|++|
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l  160 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQEL  160 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHH
Confidence            9999999999999988776643   2568999999999997766777778888888889999999999999999999998


Q ss_pred             HH
Q 040481          174 IR  175 (222)
Q Consensus       174 ~~  175 (222)
                      ++
T Consensus       161 ~~  162 (165)
T cd04140         161 LN  162 (165)
T ss_pred             Hh
Confidence            75

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras 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 Ras proteins. Due to

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=2.9e-31  Score=198.83  Aligned_cols=158  Identities=31%  Similarity=0.548  Sum_probs=137.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+.++..+.+...+.++.+ +.....+.+++..+.+.+||++|++.+...+..+++.+|++|+||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcce-eeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            7999999999999999999999988888888764 343445667888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEccCC
Q 040481           97 DITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETSALD  162 (222)
Q Consensus        97 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~  162 (222)
                      |++++.+|+.+. .|+..+.... ..+|+++|+||.|+.+.            ..+..+++..++..++. ++++|||++
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  159 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALT  159 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccc
Confidence            999999999995 6888876654 46899999999999642            24778888999999884 899999999


Q ss_pred             CCCHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIRE  176 (222)
Q Consensus       163 ~~~i~~~~~~i~~~  176 (222)
                      |.|++++|+.+++.
T Consensus       160 ~~~i~~~f~~l~~~  173 (174)
T cd01871         160 QKGLKTVFDEAIRA  173 (174)
T ss_pred             cCCHHHHHHHHHHh
Confidence            99999999988763

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=2.9e-31  Score=201.42  Aligned_cols=160  Identities=31%  Similarity=0.553  Sum_probs=137.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|++|||||||+++|.++.+...+.++.+..+. ..+..++..+.+.+||++|++.+..++..+++.+|++|+|||
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~d   80 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFS   80 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEE
Confidence            8999999999999999999999988877787765543 455667888899999999999998888899999999999999


Q ss_pred             CCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHcC-CeEEEEccCCC
Q 040481           98 ITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIR------------NVSTEEGKSLAEAEG-LFFMETSALDS  163 (222)
Q Consensus        98 ~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~------------~~~~~~~~~~~~~~~-~~~~~~sa~~~  163 (222)
                      ++++.+|+.+. .|+..+.... .+.|+++|+||+|+.+..            .+..++...++...+ ++|++|||++|
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~  159 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLN  159 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcC
Confidence            99999999986 6998887654 468999999999996533            345667777887776 78999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIYS  179 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~  179 (222)
                      .|++++|.++++.+..
T Consensus       160 ~~v~e~f~~l~~~~~~  175 (189)
T cd04134         160 RGVNEAFTEAARVALN  175 (189)
T ss_pred             CCHHHHHHHHHHHHhc
Confidence            9999999999988763

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.

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=100.00  E-value=5.9e-31  Score=194.91  Aligned_cols=161  Identities=37%  Similarity=0.563  Sum_probs=140.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++++|||||++++.+..+...+.++.+.. ......+++..+.+.+||+||++.+..++..+++.+|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            4799999999999999999999988776666665533 345566788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ||+++..+|+.+..|+..+.... ..++|+++|+||+|+.....+..++...++...+++++++||++|.|++++|++++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  160 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLV  160 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999998887653 35789999999999987666777788888888899999999999999999999998


Q ss_pred             HHH
Q 040481          175 REI  177 (222)
Q Consensus       175 ~~~  177 (222)
                      ..+
T Consensus       161 ~~~  163 (164)
T cd04145         161 RVI  163 (164)
T ss_pred             Hhh
Confidence            754

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=100.00  E-value=8.2e-31  Score=193.52  Aligned_cols=159  Identities=37%  Similarity=0.624  Sum_probs=138.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||++|++.+..++..+++.+|++++||
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~   80 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVF   80 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEE
Confidence            6999999999999999999999888777777765443 455667888888999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |+++..+|+.+..|+..+.... ..+.|+++|+||.|+.+ +.....++..++...+++++++||++|.|++++|+++++
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  159 (162)
T cd04138          81 AINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVR  159 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHH
Confidence            9999999999999988887654 35789999999999976 456667778888888999999999999999999999986


Q ss_pred             HH
Q 040481          176 EI  177 (222)
Q Consensus       176 ~~  177 (222)
                      .+
T Consensus       160 ~~  161 (162)
T cd04138         160 EI  161 (162)
T ss_pred             Hh
Confidence            53

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.8e-33  Score=195.92  Aligned_cols=200  Identities=36%  Similarity=0.608  Sum_probs=174.5

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC---------CeEEEEEEEeCCCcchhhhh
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID---------GKEVKAQIWDTAGQERFRAV   81 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~i~D~~G~~~~~~~   81 (222)
                      ...++.||.+.+|++|+|||+|+.+++.+.+......+.++++-.+.+.++         +..+++++|||+|+++|.++
T Consensus         4 GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSL   83 (219)
T KOG0081|consen    4 GDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSL   83 (219)
T ss_pred             ccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHH
Confidence            345677899999999999999999999999999999999999999888874         35688999999999999999


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      +.+|++.+=+++++||+++.+||-++..|+..++.+.- ....+++++||+||.+.+.+..+++..+++++++|||++||
T Consensus        84 TTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA  163 (219)
T KOG0081|consen   84 TTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSA  163 (219)
T ss_pred             HHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeecc
Confidence            99999999999999999999999999999999877654 34567888999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhhhhccCCcchhhhhccccceeecccCCCC
Q 040481          161 LDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELSLNRVTLVKSETDGS  210 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~  210 (222)
                      -+|.||.+..+.++..++++.++-.-++.........++.+...-++.+.
T Consensus       164 ~tg~Nv~kave~LldlvM~Rie~~v~~s~~p~~~~~~~~g~~~~e~~~~~  213 (219)
T KOG0081|consen  164 CTGTNVEKAVELLLDLVMKRIEQCVEKSEIPLLVTRSNCGHLDGEEPCER  213 (219)
T ss_pred             ccCcCHHHHHHHHHHHHHHHHHHHHhhcccchhhhccccccCCCCCChhh
Confidence            99999999999999999999888776666666655555555555444433

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=4.7e-31  Score=201.36  Aligned_cols=165  Identities=17%  Similarity=0.241  Sum_probs=137.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh--------hHHHhhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA--------VTSAYYRG   88 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~   88 (222)
                      +||+|+|+++||||||++++.++.+...+.|+.+.++....+.+++..+.+++|||||...+..        .....++.
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            4899999999999999999999998888888877676666677888889999999999654321        13345789


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEEccCCCC
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHS---DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-AEGLFFMETSALDST  164 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~  164 (222)
                      +|++|+|||++++.+|+.+..|+..+....   ..++|+++|+||+|+...+.+..++...++. .++++|++|||++|.
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~  160 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNW  160 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCC
Confidence            999999999999999999999998887654   4679999999999997766667766666654 568999999999999


Q ss_pred             CHHHHHHHHHHHHHHHh
Q 040481          165 NVKSAFEIVIREIYSNV  181 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~~  181 (222)
                      ||+++|..++..++.+.
T Consensus       161 ~v~~lf~~i~~~~~~~~  177 (198)
T cd04142         161 HILLLFKELLISATTRG  177 (198)
T ss_pred             CHHHHHHHHHHHhhccC
Confidence            99999999998777443

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras 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 Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.98  E-value=1e-30  Score=199.42  Aligned_cols=156  Identities=28%  Similarity=0.549  Sum_probs=139.8

Q ss_pred             EcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCCh
Q 040481           22 IGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRR  101 (222)
Q Consensus        22 ~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~  101 (222)
                      +|+++||||||+++++.+.+...+.++.+.++....+.+++..+.+.+||++|++.+..++..+++.+|++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999888888888988888888888888899999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          102 TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       102 ~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      .+|+.+..|+..+.... .++|+++|+||+|+.. +.+..+. ..++...++.|++|||++|.||.++|.+++..+.+.
T Consensus        81 ~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       81 VTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HHHHHHHHHHHHHHHhC-CCCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999998765 4789999999999864 3444443 467888899999999999999999999999988764

Ran is involved in the active transport of proteins through nuclear pores.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.98  E-value=1.5e-30  Score=192.82  Aligned_cols=160  Identities=31%  Similarity=0.585  Sum_probs=140.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC--cCCCCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN--EFNPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      +||+++|++|||||||+++|...  .+...+.++.+.++....+.++ +..+.+.+||+||++.+..++..++..+|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            48999999999999999999865  5667788888878776666664 56789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+|+.+..|+..+.... .+.|+++|+||+|+.+...+.......++...+++++++||+++.|+.++|+.+
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESL  159 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHH
Confidence            9999999999999999999887764 568999999999998767777777777888888999999999999999999998


Q ss_pred             HHHH
Q 040481          174 IREI  177 (222)
Q Consensus       174 ~~~~  177 (222)
                      ++.+
T Consensus       160 ~~~~  163 (164)
T cd04101         160 ARAF  163 (164)
T ss_pred             HHHh
Confidence            8764

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.98  E-value=1.9e-30  Score=191.53  Aligned_cols=161  Identities=39%  Similarity=0.698  Sum_probs=144.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|+|||||+++|.+..+...+.++.+.++....+...+..+.+.+||+||++.+...+..+++.+|++++||
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            48999999999999999999999887776677666776677777777888999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+++.+..|+..+.......+|+++|+||+|+.....+..++..+++...+++++++|++++.|++++|+++.+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~  160 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKR  160 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999988776689999999999998767777888888888899999999999999999999999876


Q ss_pred             H
Q 040481          177 I  177 (222)
Q Consensus       177 ~  177 (222)
                      +
T Consensus       161 ~  161 (162)
T cd04123         161 M  161 (162)
T ss_pred             h
Confidence            5

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate 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 GTPases contain a lipid modification site

>cd01862 Rab7 Rab7 subfamily

Probab=99.98  E-value=4e-30  Score=191.89  Aligned_cols=164  Identities=41%  Similarity=0.737  Sum_probs=145.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|+++||||||++++.+..+...+.++.+.++....+...+..+.+.+||+||++.+...+..+++.+|++|+||
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            48999999999999999999999887777788887887777888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEEccCCCCCHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS----DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~----~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~  171 (222)
                      |++++.+++.+..|...+....    ..++|+++|+||+|+........++...++...+ ++++++|+++|.|+.++|+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  160 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFE  160 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHH
Confidence            9999999999988887765443    2478999999999998656677778888888887 8899999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          172 IVIREIYSN  180 (222)
Q Consensus       172 ~i~~~~~~~  180 (222)
                      ++++.+++.
T Consensus       161 ~i~~~~~~~  169 (172)
T cd01862         161 TIARKALEQ  169 (172)
T ss_pred             HHHHHHHhc
Confidence            999988765

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-

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.97  E-value=2.3e-30  Score=196.93  Aligned_cols=158  Identities=27%  Similarity=0.434  Sum_probs=128.9

Q ss_pred             eEEEEEEcCCCCCHHHHHH-HHhcCc-----CCCCCCCccce-eEEEEE--------EEECCeEEEEEEEeCCCcchhhh
Q 040481           16 LFKIVIIGDSAVGKSNLLS-RYARNE-----FNPHSKATIGV-EFQTQS--------MEIDGKEVKAQIWDTAGQERFRA   80 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~-~l~~~~-----~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~i~D~~G~~~~~~   80 (222)
                      .+||+++|+++||||||+. ++.+..     +...+.||.+. +.+...        +.+++..+.+++|||+|++..  
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~~--   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHDK--   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChhh--
Confidence            4799999999999999995 555443     34556677642 322222        246888999999999998753  


Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc-------------------CCCCC
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLES-------------------IRNVS  140 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~-------------------~~~~~  140 (222)
                      ....+++.+|++|+|||++++.+|+.+. .|+..+.... ...|+++|+||+||.+                   .+.+.
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            4556889999999999999999999996 6998887665 4689999999999964                   36788


Q ss_pred             HHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          141 TEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      .++++.+++.++++|++|||++|.||+++|+.+++.
T Consensus       159 ~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         159 PETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            899999999999999999999999999999988763

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.97  E-value=2.5e-30  Score=193.58  Aligned_cols=158  Identities=34%  Similarity=0.584  Sum_probs=136.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEEC
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI   98 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~   98 (222)
                      |+|+|++|||||||++++.++.+...+.++....+ ...+.+++..+.+.+||+||++.+..++..+++.+|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            58999999999999999999998777777755443 44566788888999999999999998999999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEccCCCC
Q 040481           99 TRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETSALDST  164 (222)
Q Consensus        99 ~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~  164 (222)
                      +++++|+.+. .|+..+.... .++|+++|+||+|+...            ..+..+++..++...+. +++++||++|.
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  158 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQE  158 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCC
Confidence            9999999995 6999887754 46899999999998642            23677788889999986 89999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREIY  178 (222)
Q Consensus       165 ~i~~~~~~i~~~~~  178 (222)
                      |++++|..+++.++
T Consensus       159 ~v~~lf~~l~~~~~  172 (174)
T smart00174      159 GVREVFEEAIRAAL  172 (174)
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999998765

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.97  E-value=2.6e-30  Score=178.94  Aligned_cols=171  Identities=50%  Similarity=0.859  Sum_probs=161.3

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ...+.+|-+|+|+.|+|||.|++.+....+-...+.++++++....+.+.+..+++++||++|+++|....+.+|+.+.+
T Consensus         7 nysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaag   86 (215)
T KOG0097|consen    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   86 (215)
T ss_pred             chhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccc
Confidence            34567899999999999999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      .+.|||++.+.++..+..|+...+........+++++||.||...+.+..+++++|+.+.+..|+++||++|.+|.+.|-
T Consensus        87 almvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafl  166 (215)
T KOG0097|consen   87 ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFL  166 (215)
T ss_pred             eeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHH
Confidence            99999999999999999999999988888888899999999999999999999999999999999999999999999998


Q ss_pred             HHHHHHHHHhh
Q 040481          172 IVIREIYSNVS  182 (222)
Q Consensus       172 ~i~~~~~~~~~  182 (222)
                      ....+++....
T Consensus       167 e~akkiyqniq  177 (215)
T KOG0097|consen  167 ETAKKIYQNIQ  177 (215)
T ss_pred             HHHHHHHHhhh
Confidence            88888887654

>cd01892 Miro2 Miro2 subfamily

Probab=99.97  E-value=2.8e-30  Score=192.66  Aligned_cols=163  Identities=17%  Similarity=0.214  Sum_probs=140.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ++.+||+++|++|||||||++++.++.+. ..+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.+|++
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~   81 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVA   81 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEE
Confidence            46799999999999999999999999988 78888888887777777888888899999999999988889999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFE  171 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~  171 (222)
                      ++|||++++.+|+.+..|+..+...  .++|+++|+||.|+.+.......+..+++..+++ .++++||+++.|++++|+
T Consensus        82 llv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~  159 (169)
T cd01892          82 CLVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFT  159 (169)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHH
Confidence            9999999999999998998876432  3689999999999975444444455667777776 479999999999999999


Q ss_pred             HHHHHHH
Q 040481          172 IVIREIY  178 (222)
Q Consensus       172 ~i~~~~~  178 (222)
                      .+++.++
T Consensus       160 ~l~~~~~  166 (169)
T cd01892         160 KLATAAQ  166 (169)
T ss_pred             HHHHHhh
Confidence            9988765

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 putative GTPase domain in the C terminus 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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.97  E-value=7.6e-30  Score=188.55  Aligned_cols=159  Identities=52%  Similarity=0.910  Sum_probs=142.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999998887777788888888777778888899999999999999888899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |++++.+|+.+..|+..+.... ..+.|+++|+||+|+.. .....++...++...+++++++||++|.|+.++++.+++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~  159 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVE  159 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHH
Confidence            9999999999999999887765 36789999999999973 455667788899999999999999999999999998876


Q ss_pred             H
Q 040481          176 E  176 (222)
Q Consensus       176 ~  176 (222)
                      .
T Consensus       160 ~  160 (161)
T cd01863         160 K  160 (161)
T ss_pred             h
Confidence            5

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.97  E-value=3.2e-30  Score=191.46  Aligned_cols=160  Identities=38%  Similarity=0.557  Sum_probs=136.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-hhhhHHHhhcCCCEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-FRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~vi~v~   96 (222)
                      ||+++|++|||||||+++++...+...+.++....+ ...+.+++..+.+.+||+||+.. .......+++.+|++|+||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            589999999999999999998887666666654333 45566788888999999999885 3445677899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC-CCHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS--DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS-TNVKSAFEIV  173 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~--~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~-~~i~~~~~~i  173 (222)
                      |++++.+|+.+..|+..+....  ..+.|+++|+||+|+...+.+..+++..++...+++|+++||++| .|++++|..+
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l  159 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHEL  159 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHH
Confidence            9999999999999998887754  356899999999999776778888888899999999999999999 5999999999


Q ss_pred             HHHHH
Q 040481          174 IREIY  178 (222)
Q Consensus       174 ~~~~~  178 (222)
                      ++.+.
T Consensus       160 ~~~~~  164 (165)
T cd04146         160 CREVR  164 (165)
T ss_pred             HHHHh
Confidence            98654

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.97  E-value=4.1e-30  Score=189.59  Aligned_cols=153  Identities=20%  Similarity=0.361  Sum_probs=129.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||++++..+.+...+.++ +..+ ...+.+++..+.+.+||++|.+.     ..+++.+|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            48999999999999999999988877665544 3333 46678888888999999999975     24578899999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLE--SIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |++++.+|+.+..|+..+..... ..+|+++|+||.|+.  ..+.+..+++.++++.. ++.|++|||++|.||+++|..
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~  153 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQE  153 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHH
Confidence            99999999999999999987654 568999999999985  35678888888898876 589999999999999999998


Q ss_pred             HHHH
Q 040481          173 VIRE  176 (222)
Q Consensus       173 i~~~  176 (222)
                      +++.
T Consensus       154 ~~~~  157 (158)
T cd04103         154 AAQK  157 (158)
T ss_pred             HHhh
Confidence            8754

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd04177 RSR1 RSR1 subgroup

Probab=99.97  E-value=9e-30  Score=189.67  Aligned_cols=162  Identities=36%  Similarity=0.559  Sum_probs=142.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      ++||+++|++|||||||++++.++.+...+.++.+.. ....+.+++..+.+++||+||++.+..++..+++.++++++|
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv   79 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLV   79 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEE
Confidence            3689999999999999999999988877777776543 356667788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEEccCCCCCHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      ||++++++|+.+..|...+.... ..+.|+++++||.|+.+.+....++...++..++ ++++++||+++.|++++|.++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i  159 (168)
T cd04177          80 YSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDL  159 (168)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHH
Confidence            99999999999999988887643 3578999999999998777777777888888887 889999999999999999999


Q ss_pred             HHHHH
Q 040481          174 IREIY  178 (222)
Q Consensus       174 ~~~~~  178 (222)
                      +.+++
T Consensus       160 ~~~~~  164 (168)
T cd04177         160 VRQII  164 (168)
T ss_pred             HHHHh
Confidence            98765

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras 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 featu

>cd04114 Rab30 Rab30 subfamily

Probab=99.97  E-value=1.7e-29  Score=188.16  Aligned_cols=164  Identities=42%  Similarity=0.783  Sum_probs=145.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|+|||||++++.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|+++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i   84 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALI   84 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            35689999999999999999999988777777777777777777888888888999999999999988899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||+.++.+++.+..|+..+......+.|+++|+||.|+.+.+.+..+..+.+......+++++||++|.|++++|+.+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i  164 (169)
T cd04114          85 LTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDL  164 (169)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHH
Confidence            99999999999999999998877766678999999999998777777777778888888899999999999999999999


Q ss_pred             HHHH
Q 040481          174 IREI  177 (222)
Q Consensus       174 ~~~~  177 (222)
                      .+.+
T Consensus       165 ~~~~  168 (169)
T cd04114         165 ACRL  168 (169)
T ss_pred             HHHh
Confidence            8754

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.97  E-value=6.7e-30  Score=200.85  Aligned_cols=161  Identities=24%  Similarity=0.438  Sum_probs=139.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++++++.+...+.++.+ ++....+.+++..+.++|||++|++.+..++..++..+|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            4899999999999999999999988877777765 555667778888999999999999999888888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhc---------CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEEccCCCCCH
Q 040481           97 DITRRTTFDSISRWLDELKTH---------SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-EGLFFMETSALDSTNV  166 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~---------~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i  166 (222)
                      |++++.+|+.+..|+..+...         ...++|+++|+||+|+...+.+..+++.+++.. .++.++++||++|.|+
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI  159 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNL  159 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCH
Confidence            999999999999998888653         225689999999999986667777777777654 4688999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIY  178 (222)
Q Consensus       167 ~~~~~~i~~~~~  178 (222)
                      +++|++|+..+.
T Consensus       160 ~elf~~L~~~~~  171 (247)
T cd04143         160 DEMFRALFSLAK  171 (247)
T ss_pred             HHHHHHHHHHhc
Confidence            999999988553

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>cd04148 RGK RGK subfamily

Probab=99.97  E-value=1e-29  Score=197.30  Aligned_cols=164  Identities=28%  Similarity=0.403  Sum_probs=139.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc-CCCEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR-GAVGALI   94 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~d~vi~   94 (222)
                      +||+++|++|||||||+++|..+.+. ..+.++.+.++....+.+++..+.+.+||++|.+.  .....++. .+|++|+
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEE
Confidence            48999999999999999999888776 56666655567777788888889999999999982  23344566 8999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+..... .++|+++|+||+|+...+.+..++...++...+++++++||+++.||+++|+++
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l  158 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGI  158 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            9999999999999999998877543 578999999999998777788888888888889999999999999999999999


Q ss_pred             HHHHHHHhh
Q 040481          174 IREIYSNVS  182 (222)
Q Consensus       174 ~~~~~~~~~  182 (222)
                      +..+.....
T Consensus       159 ~~~~~~~~~  167 (221)
T cd04148         159 VRQIRLRRD  167 (221)
T ss_pred             HHHHHhhhc
Confidence            998875443

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

>cd00154 Rab Rab family

Probab=99.97  E-value=1.3e-29  Score=185.90  Aligned_cols=158  Identities=54%  Similarity=0.923  Sum_probs=145.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|+++||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||+..+...+..+++.+|++|+|+
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988887888888888888888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |++++.+++.+..|+..+........|+++++||+|+........++.+.++...+++++++||+++.|+.++|.+|.
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            999999999999999999887767789999999999975567778888889998999999999999999999999875

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

>cd04135 Tc10 TC10 subfamily

Probab=99.97  E-value=1.1e-29  Score=190.06  Aligned_cols=159  Identities=32%  Similarity=0.529  Sum_probs=136.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|+|||||++++..+.+...+.++.. +.....+.+++..+.+.+||+||++.+...+..+++.+|++|+||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            5899999999999999999999988777777654 333445677888888999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEccCC
Q 040481           97 DITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETSALD  162 (222)
Q Consensus        97 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~  162 (222)
                      |++++.+|+.+. .|+..+... ..+.|+++|+||+|+.+.            ..+..+++..++...++ +++++||++
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  158 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALT  158 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCc
Confidence            999999999995 688888765 567899999999998642            25667788888888886 799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIREI  177 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~  177 (222)
                      |.|++++|+.+++.+
T Consensus       159 ~~gi~~~f~~~~~~~  173 (174)
T cd04135         159 QKGLKTVFDEAILAI  173 (174)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998865

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.97  E-value=1.6e-29  Score=189.24  Aligned_cols=157  Identities=32%  Similarity=0.566  Sum_probs=135.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|+|||||++++.++.+...+.++. .+.....+.+++..+.+.+||+||++.+...+..+++.+|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            589999999999999999999988877777764 4555556777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEEccCC
Q 040481           97 DITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEGL-FFMETSALD  162 (222)
Q Consensus        97 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~  162 (222)
                      |++++.+|+.+. .|+..+.... .++|+++|+||.|+..            .+.+..+++..++...+. .++++||++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~  158 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALT  158 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCC
Confidence            999999999984 6888887543 4689999999999863            356777888999999887 899999999


Q ss_pred             CCCHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIR  175 (222)
Q Consensus       163 ~~~i~~~~~~i~~  175 (222)
                      |.|++++|+.++-
T Consensus       159 ~~~v~~lf~~~~~  171 (173)
T cd04130         159 QKNLKEVFDTAIL  171 (173)
T ss_pred             CCCHHHHHHHHHh
Confidence            9999999987764

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=1.8e-28  Score=181.45  Aligned_cols=161  Identities=37%  Similarity=0.589  Sum_probs=139.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++++...+...+.++.+.. ......+++..+.+.+||+||+..+...+..+++.+|++++||
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhh-EEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            489999999999999999999988877766665433 3455667888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |+.++.+|..+..|+..+..... .++|+++|+||+|+.+.......+...++..++++++++||++|.|+.++|.++++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  159 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHH
Confidence            99999999999999888877643 57999999999999765556667777888888899999999999999999999987


Q ss_pred             HHH
Q 040481          176 EIY  178 (222)
Q Consensus       176 ~~~  178 (222)
                      .+.
T Consensus       160 ~~~  162 (164)
T cd04139         160 EIR  162 (164)
T ss_pred             HHH
Confidence            664

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

>cd00876 Ras Ras family

Probab=99.97  E-value=1.1e-28  Score=181.72  Aligned_cols=158  Identities=39%  Similarity=0.650  Sum_probs=139.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|++|||||||+++|++..+...+.++.. +.....+..++..+.+.+||+||+..+...+..+++.+|++++|||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            689999999999999999998887666666655 5555666677778889999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ++++++++.+..|+..+..... ...|+++|+||+|+........+++..++...+++++++|++++.|++++|++|++.
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            9999999999999888877665 678999999999998767778888888999889999999999999999999998865

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras 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 m

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.96  E-value=6e-28  Score=181.71  Aligned_cols=163  Identities=37%  Similarity=0.573  Sum_probs=139.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      .||+++|++|+|||||++++.+..+...+.++....+ ...+..++..+.+++||+||++.+...+..++..++++++||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            5899999999999999999999887666666654333 455566777888999999999999989999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |+++..+++.+..|+..+.... ..+.|+++|+||+|+...+.+..++...++..++++++++||+++.|+.++|.++.+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  160 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIE  160 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            9999999999999887776643 356899999999999866666777777788888899999999999999999999998


Q ss_pred             HHHHH
Q 040481          176 EIYSN  180 (222)
Q Consensus       176 ~~~~~  180 (222)
                      .+...
T Consensus       161 ~~~~~  165 (180)
T cd04137         161 EIEKV  165 (180)
T ss_pred             HHHHh
Confidence            76543

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.96  E-value=3e-28  Score=183.95  Aligned_cols=165  Identities=22%  Similarity=0.341  Sum_probs=131.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      .+||+++|++|||||||++++....+... .++.+.+.....+.. ++..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            48999999999999999999998876543 566565555444443 4467889999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH------cCCeEEEEccCCCCCHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA------EGLFFMETSALDSTNVK  167 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~------~~~~~~~~sa~~~~~i~  167 (222)
                      |||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+  ....++...+...      .+++++++||++|.|++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~  159 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN--ALSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQ  159 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc--cCCHHHHHHHhCccccCCCCceEEEEeecccCCCHH
Confidence            999999999999888887776543 35689999999999864  2334444444321      13568999999999999


Q ss_pred             HHHHHHHHHHHHHhhh
Q 040481          168 SAFEIVIREIYSNVSR  183 (222)
Q Consensus       168 ~~~~~i~~~~~~~~~~  183 (222)
                      ++|++|++.+.+.+..
T Consensus       160 ~l~~~l~~~l~~~~~~  175 (183)
T cd04152         160 EGLEKLYEMILKRRKM  175 (183)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999988766544

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.96  E-value=5.6e-28  Score=184.67  Aligned_cols=160  Identities=28%  Similarity=0.453  Sum_probs=133.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|++|||||||+++|++..+...+.++.. +.....+.+.+..+.+++||+||+..+..++..++..+|++|+|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            689999999999999999999888766666643 4455567777878899999999999998888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCc-CCCCCHHHHHHHHH-HcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLES-IRNVSTEEGKSLAE-AEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ++++.+|+.+..|+..+..... .++|+++|+||+|+.. ...+..+...+... ..+++++++||++|.|++++|++++
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  159 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELL  159 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999988877654 5799999999999965 34555555544443 4567899999999999999999999


Q ss_pred             HHHH
Q 040481          175 REIY  178 (222)
Q Consensus       175 ~~~~  178 (222)
                      +.+.
T Consensus       160 ~~~~  163 (198)
T cd04147         160 RQAN  163 (198)
T ss_pred             HHhh
Confidence            8765

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras 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 Ras proteins.

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.96  E-value=2.8e-30  Score=177.02  Aligned_cols=163  Identities=45%  Similarity=0.740  Sum_probs=150.7

Q ss_pred             EEcCCCCCHHHHHHHHhcCcC-CCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECC
Q 040481           21 IIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDIT   99 (222)
Q Consensus        21 i~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~   99 (222)
                      ++|++++|||.|+-++..+.+ ......+.++++-.+.+.+++..+++++|||+|+++|.+.+.++|+.+|+++++||+.
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydia   81 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIA   81 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecc
Confidence            689999999999998888776 3456688899999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          100 RRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       100 ~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      ++.||++...|+.++..+....+.+.+++||+|+..++.+..++.+.+++.+++||+++||++|.|++..|-.|.+.+..
T Consensus        82 nkasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k  161 (192)
T KOG0083|consen   82 NKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKK  161 (192)
T ss_pred             cchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHH
Confidence            99999999999999999988888999999999998889999999999999999999999999999999999988887776


Q ss_pred             Hhhh
Q 040481          180 NVSR  183 (222)
Q Consensus       180 ~~~~  183 (222)
                      ....
T Consensus       162 ~~~~  165 (192)
T KOG0083|consen  162 LKMG  165 (192)
T ss_pred             hccC
Confidence            5433

>cd04149 Arf6 Arf6 subfamily

Probab=99.96  E-value=2.3e-28  Score=182.12  Aligned_cols=154  Identities=20%  Similarity=0.353  Sum_probs=122.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|+++||||||+++|....+. .+.|+.+.++.  .+..  ..+.+++||+||++.+...+..+++.+|++|+
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~   82 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   82 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            3589999999999999999999877654 34566665543  2323  45789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEEccCCCCCHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-----EGLFFMETSALDSTNVKS  168 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~~  168 (222)
                      |||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+  .+..+++..+...     ..+.++++||++|.|+++
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~  160 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYE  160 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc--CCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHH
Confidence            999999999999988776665432 35689999999999864  3455666555432     234689999999999999


Q ss_pred             HHHHHHH
Q 040481          169 AFEIVIR  175 (222)
Q Consensus       169 ~~~~i~~  175 (222)
                      +|.+|.+
T Consensus       161 ~~~~l~~  167 (168)
T cd04149         161 GLTWLSS  167 (168)
T ss_pred             HHHHHhc
Confidence            9999865

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=3.7e-28  Score=183.05  Aligned_cols=159  Identities=19%  Similarity=0.342  Sum_probs=123.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...+||+++|+++||||||++++..+.+. .+.|+.+.++.  .+.+  ..+.+++||+||++.+..++..+++.+|++|
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI   89 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLI   89 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            34589999999999999999999877664 34566665443  3333  3577899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-----CeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG-----LFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+++.+..++..+... ....+|++||+||.|+.+.  ...++..+......     +.++++||++|+||.
T Consensus        90 ~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~  167 (181)
T PLN00223         90 FVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLY  167 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCceEEEeccCCCCCCHH
Confidence            999999999999888777666443 2256899999999999753  33333333322111     246789999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYS  179 (222)
Q Consensus       168 ~~~~~i~~~~~~  179 (222)
                      ++|++|++.+.+
T Consensus       168 e~~~~l~~~~~~  179 (181)
T PLN00223        168 EGLDWLSNNIAN  179 (181)
T ss_pred             HHHHHHHHHHhh
Confidence            999999887764

>cd04129 Rho2 Rho2 subfamily

Probab=99.96  E-value=9.1e-28  Score=181.93  Aligned_cols=163  Identities=33%  Similarity=0.533  Sum_probs=135.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      .||+++|++|+|||||++++..+.+...+.++....+ ...+.+++..+.+.+||++|++.+......++..+|++++||
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            4899999999999999999998877666666544333 345667777888999999999888777777889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc----------CCCCCHHHHHHHHHHcCC-eEEEEccCCCC
Q 040481           97 DITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLES----------IRNVSTEEGKSLAEAEGL-FFMETSALDST  164 (222)
Q Consensus        97 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~----------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~  164 (222)
                      |+++.++|+.+. .|+..+....+ .+|+++|+||.|+.+          .+.+..++...++...++ +|++|||++|.
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  159 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYCP-NVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGE  159 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCC
Confidence            999999999996 69988876543 599999999999853          234556778888988885 79999999999


Q ss_pred             CHHHHHHHHHHHHHHHh
Q 040481          165 NVKSAFEIVIREIYSNV  181 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~~  181 (222)
                      ||+++|+++.+.++..+
T Consensus       160 ~v~~~f~~l~~~~~~~~  176 (187)
T cd04129         160 GVDDVFEAATRAALLVR  176 (187)
T ss_pred             CHHHHHHHHHHHHhccc
Confidence            99999999998776543

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. 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 proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>cd04158 ARD1 ARD1 subfamily

Probab=99.96  E-value=4.9e-28  Score=180.50  Aligned_cols=156  Identities=22%  Similarity=0.401  Sum_probs=125.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|+++||||||+++|.+..+.. +.+|.+..+.  .+.+  ..+.+++||+||+..+...+..+++.+|+++||||
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~--~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEY--KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEE--CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            68999999999999999999886543 5566554443  3333  35778899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC------CeEEEEccCCCCCHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG------LFFMETSALDSTNVKSAF  170 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~------~~~~~~sa~~~~~i~~~~  170 (222)
                      ++++.+|+.+..|+..+..... .+.|++||+||+|+.+  .+..+++.+++...+      +.++++||++|.||.++|
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f  153 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGL  153 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHH
Confidence            9999999999998888865432 4589999999999964  356666666654322      368899999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          171 EIVIREIYSN  180 (222)
Q Consensus       171 ~~i~~~~~~~  180 (222)
                      ++|++.+.+.
T Consensus       154 ~~l~~~~~~~  163 (169)
T cd04158         154 DWLSRQLVAA  163 (169)
T ss_pred             HHHHHHHhhc
Confidence            9998876654

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.96  E-value=1.1e-27  Score=179.30  Aligned_cols=159  Identities=33%  Similarity=0.568  Sum_probs=133.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      .||+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||++|++.+...+..++..+|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            4899999999999999999999988877777766444 345667888889999999999999888888899999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEccCC
Q 040481           97 DITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETSALD  162 (222)
Q Consensus        97 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~  162 (222)
                      |++++++|+.+. .|+..+.... .+.|+++|+||.|+.+.            ..+...+..+++...+. .+++|||++
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  159 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEecccc
Confidence            999999999985 5888776643 46899999999998542            23445667777877764 799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIREI  177 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~  177 (222)
                      |.|++++|.++++.+
T Consensus       160 ~~~v~~lf~~l~~~~  174 (175)
T cd01870         160 KEGVREVFEMATRAA  174 (175)
T ss_pred             CcCHHHHHHHHHHHh
Confidence            999999999988654

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. 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. RhoA and RhoC are observed only in geranyl

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.96  E-value=6.6e-29  Score=184.36  Aligned_cols=153  Identities=22%  Similarity=0.313  Sum_probs=125.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      .|+++|++|||||||+++|.+..+...+.|+.+...    ..++...+.+.+||+||++.+...+..+++.+|++|+|||
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   76 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVD   76 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEE
Confidence            379999999999999999999877777777776542    2344556889999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH----HHHHHHHHHcCCeEEEEccCC------CCCHH
Q 040481           98 ITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST----EEGKSLAEAEGLFFMETSALD------STNVK  167 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~sa~~------~~~i~  167 (222)
                      .+++.+|..+..|+..+.... .++|+++|+||.|+.....+..    ..+..++...++.++++||++      ++||+
T Consensus        77 ~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~  155 (164)
T cd04162          77 SADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVK  155 (164)
T ss_pred             CCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHH
Confidence            999999999988888876544 5789999999999975443221    123455566688899999988      99999


Q ss_pred             HHHHHHHH
Q 040481          168 SAFEIVIR  175 (222)
Q Consensus       168 ~~~~~i~~  175 (222)
                      ++|+.++.
T Consensus       156 ~~~~~~~~  163 (164)
T cd04162         156 DLLSQLIN  163 (164)
T ss_pred             HHHHHHhc
Confidence            99998764

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.96  E-value=6.3e-28  Score=182.79  Aligned_cols=166  Identities=38%  Similarity=0.557  Sum_probs=151.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ...||+++|.+|+|||+|..++....+.+.|.|++. +.+...+.+++..+.+.|+||+|++++..+...++..+|++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            357999999999999999999999999999999977 6677778888999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      ||+++++.||+.+..++..+.+.. ...+|+++||||+|+...+.+..++...++..++++|+|+||+.+.+++++|..+
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L  160 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYEL  160 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHH
Confidence            999999999999999998884443 3568999999999999889999999999999999999999999999999999999


Q ss_pred             HHHHHHHh
Q 040481          174 IREIYSNV  181 (222)
Q Consensus       174 ~~~~~~~~  181 (222)
                      +..+...+
T Consensus       161 ~r~~~~~~  168 (196)
T KOG0395|consen  161 VREIRLPR  168 (196)
T ss_pred             HHHHHhhh
Confidence            98776633

>cd00157 Rho Rho (Ras homology) family

Probab=99.96  E-value=1.3e-27  Score=178.09  Aligned_cols=157  Identities=35%  Similarity=0.608  Sum_probs=131.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.+..+...+.++.. +.....+..++..+.+++||+||++.+.......++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            5899999999999999999999988666666644 444455667788899999999999988888888889999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCC-----------CCCHHHHHHHHHHcCC-eEEEEccCCC
Q 040481           97 DITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESIR-----------NVSTEEGKSLAEAEGL-FFMETSALDS  163 (222)
Q Consensus        97 d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~-~~~~~sa~~~  163 (222)
                      |++++.+|... ..|+..+.... ...|+++|+||+|+.+..           .+..++...++...++ +++++||++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQ  158 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCC
Confidence            99999998887 45777776654 378999999999986543           3456777888888887 8999999999


Q ss_pred             CCHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIR  175 (222)
Q Consensus       164 ~~i~~~~~~i~~  175 (222)
                      .|+.++|+++++
T Consensus       159 ~gi~~l~~~i~~  170 (171)
T cd00157         159 EGVKEVFEEAIR  170 (171)
T ss_pred             CCHHHHHHHHhh
Confidence            999999998875

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.96  E-value=1.5e-28  Score=181.61  Aligned_cols=152  Identities=21%  Similarity=0.388  Sum_probs=117.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|.++||||||++++..+.+. .+.|+.+..+.  .+.+  ..+.+.+||+||++.+...+..+++.+|++||||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            48999999999999999999877765 35666665543  2333  3577899999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHH-HHHHH----HcCCeEEEEccCCCCCHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEG-KSLAE----AEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~-~~~~~----~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      |++++.+|+.+..|+..+... .....|+++++||.|+.+.  ...++. ..+..    ...+.++++||++|.|++++|
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~  153 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGL  153 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHH
Confidence            999999999998877766433 2246899999999999642  222222 22211    123457899999999999999


Q ss_pred             HHHHH
Q 040481          171 EIVIR  175 (222)
Q Consensus       171 ~~i~~  175 (222)
                      ++|.+
T Consensus       154 ~~l~~  158 (159)
T cd04150         154 DWLSN  158 (159)
T ss_pred             HHHhc
Confidence            98864

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=2.3e-27  Score=180.90  Aligned_cols=148  Identities=21%  Similarity=0.389  Sum_probs=126.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC-----CeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID-----GKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +||+++|+++||||||++++.++.+...+.+|++.++....+.++     +..+.+++||++|++.+..++..+|+.+|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            589999999999999999999999888888888877777777664     467889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcC-------------------CCCCcEEEEEeCCCCCcCCCCCHHH----HHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHS-------------------DTTVARMLVGNKCDLESIRNVSTEE----GKSLA  148 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~-------------------~~~~p~iiv~nK~Dl~~~~~~~~~~----~~~~~  148 (222)
                      +|+|||++++.||+.+..|+..+....                   ...+|++|||||.|+.+.+.+..+.    ...++
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia  160 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVA  160 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHH
Confidence            999999999999999999999986632                   2468999999999997665555442    45678


Q ss_pred             HHcCCeEEEEccCCCC
Q 040481          149 EAEGLFFMETSALDST  164 (222)
Q Consensus       149 ~~~~~~~~~~sa~~~~  164 (222)
                      .+.+++.++.++.++.
T Consensus       161 ~~~~~~~i~~~c~~~~  176 (202)
T cd04102         161 EQGNAEEINLNCTNGR  176 (202)
T ss_pred             HhcCCceEEEecCCcc
Confidence            8899999988888653

RabL3s 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, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.96  E-value=1.3e-27  Score=179.26  Aligned_cols=155  Identities=20%  Similarity=0.350  Sum_probs=121.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|+++||||||++++..+.+. .+.|+.+.++.  .+.+  ..+.+++||+||+..+...+..+++.+|++|+|
T Consensus        13 ~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v   87 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFV   87 (175)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEE
Confidence            589999999999999999999877663 35566665543  3333  357789999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ||++++.+++....|+..+.... ..++|++||+||.|+.+.  ...+++.+...     ...+.++++||++|.|+.++
T Consensus        88 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~  165 (175)
T smart00177       88 VDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA--MKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEG  165 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC--CCHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHH
Confidence            99999999999988887765432 256899999999999643  23333322221     12345779999999999999


Q ss_pred             HHHHHHHH
Q 040481          170 FEIVIREI  177 (222)
Q Consensus       170 ~~~i~~~~  177 (222)
                      |++|.+.+
T Consensus       166 ~~~l~~~~  173 (175)
T smart00177      166 LTWLSNNL  173 (175)
T ss_pred             HHHHHHHh
Confidence            99998764

Ras homologues involved in vesicular transport. Activator 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. Contains ATP/GTP-binding motif (P-loop).

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=2.6e-27  Score=178.65  Aligned_cols=158  Identities=22%  Similarity=0.369  Sum_probs=121.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|+++||||||++++..+.+.. +.|+.+.++.  .+..  ..+.+++||+||++.+...+..+++.+|++|+|
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v   91 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFV   91 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEE
Confidence            4899999999999999999998776654 4566665443  3333  457789999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ||++++.+|+.+..++..+... .....|++||+||.|+.+.  ...+++.....     ...+.++++||++|.|++++
T Consensus        92 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~  169 (182)
T PTZ00133         92 VDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA--MSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEG  169 (182)
T ss_pred             EeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC--CCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHH
Confidence            9999999999988777666433 2245799999999998642  23333222211     12235779999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          170 FEIVIREIYSN  180 (222)
Q Consensus       170 ~~~i~~~~~~~  180 (222)
                      |++|.+.+.+.
T Consensus       170 ~~~l~~~i~~~  180 (182)
T PTZ00133        170 LDWLSANIKKS  180 (182)
T ss_pred             HHHHHHHHHHh
Confidence            99998876643

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=2e-27  Score=177.87  Aligned_cols=157  Identities=24%  Similarity=0.371  Sum_probs=123.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ++...++|+++|+++||||||+++|.+..+ ..+.++.+  +....+.++  .+.+.+||+||++.+...+..+++.+|+
T Consensus        10 ~~~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g--~~~~~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~   84 (173)
T cd04154          10 LKEREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLG--FQIKTLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDA   84 (173)
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccc--cceEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCE
Confidence            445668999999999999999999998744 33445554  333444444  4678999999999998899999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTN  165 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~  165 (222)
                      +++|||++++.+|.....|+..+... ...+.|+++|+||+|+.+..  ..+++..+..     ..+++++++||++|.|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  162 (173)
T cd04154          85 LIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEG  162 (173)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcC
Confidence            99999999999999988888776543 23568999999999997532  4444444442     2457899999999999


Q ss_pred             HHHHHHHHHH
Q 040481          166 VKSAFEIVIR  175 (222)
Q Consensus       166 i~~~~~~i~~  175 (222)
                      ++++|++++.
T Consensus       163 i~~l~~~l~~  172 (173)
T cd04154         163 LLQGIDWLVD  172 (173)
T ss_pred             HHHHHHHHhc
Confidence            9999998864

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.96  E-value=9.7e-27  Score=180.06  Aligned_cols=166  Identities=28%  Similarity=0.527  Sum_probs=143.3

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....+||+++|++|||||||+++++.+.+...+.++.+.++....+..++..+.+.+||++|++.+...+..++..+++
T Consensus         5 ~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~   84 (215)
T PTZ00132          5 DEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQC   84 (215)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCE
Confidence            44556899999999999999999988888888888998888887777778889999999999999998889999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+|..+..|+..+.... ..+|+++++||.|+.+ .....+ ...++...++.++++||++|.|+++.|.
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~-~~~~~~-~~~~~~~~~~~~~e~Sa~~~~~v~~~f~  161 (215)
T PTZ00132         85 AIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKD-RQVKAR-QITFHRKKNLQYYDISAKSNYNFEKPFL  161 (215)
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCcc-ccCCHH-HHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999999999887654 4589999999999864 233333 3457777889999999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          172 IVIREIYSN  180 (222)
Q Consensus       172 ~i~~~~~~~  180 (222)
                      +|++.+...
T Consensus       162 ~ia~~l~~~  170 (215)
T PTZ00132        162 WLARRLTND  170 (215)
T ss_pred             HHHHHHhhc
Confidence            999987754

>cd01893 Miro1 Miro1 subfamily

Probab=99.96  E-value=3e-27  Score=175.76  Aligned_cols=160  Identities=29%  Similarity=0.356  Sum_probs=124.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|+++||||||+++|.++.+...+.++ ... ......+++..+.+.+||+||.+.+...+..++..+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRV-LPE-ITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCc-ccc-eEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            48999999999999999999998876553332 222 2233445667789999999999888777788889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHHcC--CeEEEEccCCCCCHHHHHH
Q 040481           97 DITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIRNV--STEEGKSLAEAEG--LFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        97 d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~  171 (222)
                      |++++.+|+.+. .|+..+.... .+.|+++|+||+|+.+....  ..++...++..+.  .+++++||+++.|++++|.
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            999999999985 6888777654 47899999999999764432  1233333333332  4799999999999999999


Q ss_pred             HHHHHHHH
Q 040481          172 IVIREIYS  179 (222)
Q Consensus       172 ~i~~~~~~  179 (222)
                      .+.+.+.+
T Consensus       158 ~~~~~~~~  165 (166)
T cd01893         158 YAQKAVLH  165 (166)
T ss_pred             HHHHHhcC
Confidence            98887654

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.

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.95  E-value=3.6e-29  Score=179.74  Aligned_cols=174  Identities=30%  Similarity=0.541  Sum_probs=161.5

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ..-+..+|++|+|..++||||+|++++.+-+...+..++++++....+.++++.+...+||++|+++|+..+.++|+.+.
T Consensus        15 ~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaq   94 (246)
T KOG4252|consen   15 TDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQ   94 (246)
T ss_pred             hhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhcccc
Confidence            34566799999999999999999999999999999999999999988888888888899999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +.++||+.+|+.||+....|++.+.... ..+|.++|-||+|+.++..+...++..+++.+.+.++.+|++...||..+|
T Consensus        95 a~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF  173 (246)
T KOG4252|consen   95 ASVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVF  173 (246)
T ss_pred             ceEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHH
Confidence            9999999999999999999999998876 458999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhc
Q 040481          171 EIVIREIYSNVSRKV  185 (222)
Q Consensus       171 ~~i~~~~~~~~~~~~  185 (222)
                      .+|++++..+..+..
T Consensus       174 ~YLaeK~~q~~kq~~  188 (246)
T KOG4252|consen  174 AYLAEKLTQQKKQSL  188 (246)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999998887765533

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.95  E-value=6.5e-28  Score=179.26  Aligned_cols=165  Identities=33%  Similarity=0.555  Sum_probs=148.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ..+|++|||+.++|||+|+..+..+.++..|.||.. +-+...+.+ ++..+.+.+|||+|++.|+..++..|+.+|+|+
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl   81 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFL   81 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEE
Confidence            468999999999999999999999999999999976 555566777 499999999999999999999888999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEEc
Q 040481           94 IVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEG-LFFMETS  159 (222)
Q Consensus        94 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~s  159 (222)
                      +||++.+++||+++ .+|+.++.... .+.|+|+||+|.||.++            ..+..++...+++..| ..|+|||
T Consensus        82 ~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcS  160 (198)
T KOG0393|consen   82 LCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECS  160 (198)
T ss_pred             EEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeeh
Confidence            99999999999998 78999999988 66899999999999742            3677888999999999 5699999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHHh
Q 040481          160 ALDSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~~~~~  181 (222)
                      |+++.|++++|+.++..++...
T Consensus       161 a~tq~~v~~vF~~a~~~~l~~~  182 (198)
T KOG0393|consen  161 ALTQKGVKEVFDEAIRAALRPP  182 (198)
T ss_pred             hhhhCCcHHHHHHHHHHHhccc
Confidence            9999999999999999888654

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=2.6e-26  Score=171.95  Aligned_cols=143  Identities=36%  Similarity=0.650  Sum_probs=128.0

Q ss_pred             CcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcC
Q 040481           39 NEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS  118 (222)
Q Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~  118 (222)
                      +.+...+.+|.+.++....+.+++..+.+.||||+|++.+...+..+++.+|++|+|||++++.+|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            34567788999989988888889999999999999999999999999999999999999999999999999999887665


Q ss_pred             CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHHHh
Q 040481          119 DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       119 ~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~~  181 (222)
                      ...+|+++|+||+|+.+.+.+..+++..++..+++.|+++||++|.||+++|++|+..+.+..
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            567899999999999876778888888899989999999999999999999999999876543

>cd04157 Arl6 Arl6 subfamily

Probab=99.95  E-value=7.3e-27  Score=172.60  Aligned_cols=152  Identities=18%  Similarity=0.331  Sum_probs=117.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC-CCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +|+++|+++||||||+++|.+... ...+.++.+.....  +  ....+.+++||+||+..+...+..+++.+|++|+|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~--~--~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES--F--EKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEE--E--EECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998753 44556666644322  2  234577889999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS---DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~---~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~  168 (222)
                      |++++.++..+..|+..+....   ..++|+++|+||+|+.+..  ..++......     ...++++++||++|.|+++
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~  154 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDE  154 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHH
Confidence            9999999998888887775532   2578999999999996432  2222222211     1234589999999999999


Q ss_pred             HHHHHHH
Q 040481          169 AFEIVIR  175 (222)
Q Consensus       169 ~~~~i~~  175 (222)
                      +|++|.+
T Consensus       155 ~~~~l~~  161 (162)
T cd04157         155 GVQWLQA  161 (162)
T ss_pred             HHHHHhc
Confidence            9999864

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.95  E-value=3.9e-26  Score=171.04  Aligned_cols=153  Identities=22%  Similarity=0.399  Sum_probs=119.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .++|+++|++++|||||+++|..+.+.. ..++.+.++.  .+.++  .+.+.+||+||++.+...+..+++.+|++|+|
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE--EIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE--EEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            4799999999999999999998877654 4556554433  33333  46788999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHH-HHH----HHcCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGK-SLA----EAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~-~~~----~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      +|+++++++.....++..+..... ...|+++++||+|+.+  ....++.. .+.    ...+++++++||++|.|++++
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~  167 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG--AMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEG  167 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC--CCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHH
Confidence            999999999888777766654332 5689999999999864  23333322 221    234567999999999999999


Q ss_pred             HHHHHH
Q 040481          170 FEIVIR  175 (222)
Q Consensus       170 ~~~i~~  175 (222)
                      |++|.+
T Consensus       168 ~~~l~~  173 (174)
T cd04153         168 LDWIAS  173 (174)
T ss_pred             HHHHhc
Confidence            999864

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=1e-25  Score=180.09  Aligned_cols=145  Identities=25%  Similarity=0.511  Sum_probs=124.8

Q ss_pred             CCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC-------------eEEEEEEEeCCCc
Q 040481            9 GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG-------------KEVKAQIWDTAGQ   75 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~i~D~~G~   75 (222)
                      ..-+....+||+++|+.|||||||+++|.++.+...+.++++.++....+.+++             ..+.++|||++|+
T Consensus        14 ~~~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGq   93 (334)
T PLN00023         14 NGGPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGH   93 (334)
T ss_pred             ccCCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCC
Confidence            355677779999999999999999999999988888888988888777766642             4688999999999


Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC------------CCCcEEEEEeCCCCCcCC---C--
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD------------TTVARMLVGNKCDLESIR---N--  138 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~------------~~~p~iiv~nK~Dl~~~~---~--  138 (222)
                      +.+..++..+++.+|++|+|||+++..+|+.+..|+..+.....            ..+|++||+||+||...+   .  
T Consensus        94 ErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s  173 (334)
T PLN00023         94 ERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSS  173 (334)
T ss_pred             hhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccc
Confidence            99999999999999999999999999999999999999987531            258999999999997543   2  


Q ss_pred             -CCHHHHHHHHHHcCC
Q 040481          139 -VSTEEGKSLAEAEGL  153 (222)
Q Consensus       139 -~~~~~~~~~~~~~~~  153 (222)
                       +..+++++|+...++
T Consensus       174 ~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        174 GNLVDAARQWVEKQGL  189 (334)
T ss_pred             cccHHHHHHHHHHcCC
Confidence             357899999998874

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.94  E-value=3.8e-26  Score=170.01  Aligned_cols=151  Identities=19%  Similarity=0.327  Sum_probs=118.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      +|+++|+++||||||+++|.+. +...+.++.+..  ...+.+.  .+.+.+||+||+..+...+..+++.+|++|+|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRLD--KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEEC--CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999876 555666776654  2334443  4678899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHH------HHHHHHc--CCeEEEEccCCC-----
Q 040481           98 ITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEG------KSLAEAE--GLFFMETSALDS-----  163 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~------~~~~~~~--~~~~~~~sa~~~-----  163 (222)
                      +++..+|+.+..|+..+..... .++|+++|+||.|+.+...  ..+.      ..++...  .+.+++|||++|     
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~--~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~  153 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALL--GADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKI  153 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCC--HHHHHHhcCcccccCCCCceEEEEEeEceeCCCCcc
Confidence            9999999999999988866533 5789999999999975332  2211      1223222  356888999998     


Q ss_pred             -CCHHHHHHHHHH
Q 040481          164 -TNVKSAFEIVIR  175 (222)
Q Consensus       164 -~~i~~~~~~i~~  175 (222)
                       .|+.+.|+||+.
T Consensus       154 ~~g~~~~~~wl~~  166 (167)
T cd04161         154 DPSIVEGLRWLLA  166 (167)
T ss_pred             ccCHHHHHHHHhc
Confidence             899999999975

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.94  E-value=3.6e-26  Score=168.69  Aligned_cols=152  Identities=23%  Similarity=0.411  Sum_probs=117.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      +|+++|++|||||||+++|.+..+.. ..++.+.++  ..+... ..+.+.+||+||+..+...+..++..+|++|+|+|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            58999999999999999999987653 345555433  333333 45779999999999999899999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHH------HHHcCCeEEEEccCCCCCHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSL------AEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~------~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +.++.++..+..|+..+.... ..+.|+++|+||+|+...  ...+++...      +...+++++++||++|.|++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  154 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAF  154 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHH
Confidence            999999999888887775543 256899999999998642  222333222      22234579999999999999999


Q ss_pred             HHHHH
Q 040481          171 EIVIR  175 (222)
Q Consensus       171 ~~i~~  175 (222)
                      ++|.+
T Consensus       155 ~~i~~  159 (160)
T cd04156         155 RKLAS  159 (160)
T ss_pred             HHHhc
Confidence            98864

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd00879 Sar1 Sar1 subfamily

Probab=99.94  E-value=7.8e-26  Score=171.64  Aligned_cols=155  Identities=22%  Similarity=0.323  Sum_probs=123.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|++|||||||+++|.+..+. .+.++.+..  ...+.+++  +.+.+||+||+..+...+..+++.+|++++
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~--~~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~iil   92 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPT--SEELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIVF   92 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            4589999999999999999999987763 344554433  33444554  567899999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH----------------cCCeEEE
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEA----------------EGLFFME  157 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~----------------~~~~~~~  157 (222)
                      |+|+++..+|.....|+..+..... .+.|+++++||+|+..  .+..++.......                ..+.+++
T Consensus        93 V~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (190)
T cd00879          93 LVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFM  170 (190)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEEE
Confidence            9999999999888888877765433 5689999999999863  4555666655532                2246899


Q ss_pred             EccCCCCCHHHHHHHHHHH
Q 040481          158 TSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~  176 (222)
                      |||++|.|++++|++|.+.
T Consensus       171 ~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         171 CSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             eEecCCCChHHHHHHHHhh
Confidence            9999999999999999875

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.94  E-value=8.2e-26  Score=167.92  Aligned_cols=152  Identities=24%  Similarity=0.423  Sum_probs=117.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCC------CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFN------PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +|+++|++|+|||||+++|.+....      ..+.++.+...  ..+.++  ...+.+||+||++.+...+..++..+|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNI--GTIEVG--NARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccce--EEEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            5899999999999999999764321      12234443333  344444  4678899999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-------cCCeEEEEccCCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-------EGLFFMETSALDS  163 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~~sa~~~  163 (222)
                      +++|+|+.+..++.....|+..+.... ..++|+++|+||+|+...  ...++...+...       .+++++++||++|
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  154 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEG  154 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCC
Confidence            999999999999998888887776543 357899999999998642  333444444332       2467999999999


Q ss_pred             CCHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIR  175 (222)
Q Consensus       164 ~~i~~~~~~i~~  175 (222)
                      .|+++++++|.+
T Consensus       155 ~gv~e~~~~l~~  166 (167)
T cd04160         155 TGVREGIEWLVE  166 (167)
T ss_pred             cCHHHHHHHHhc
Confidence            999999999865

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.94  E-value=4.1e-26  Score=168.07  Aligned_cols=151  Identities=23%  Similarity=0.380  Sum_probs=118.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|++|||||||++++.+... ....++.+...  ..+.+.  .+.+.+||+||+..+...+..++..+|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~--~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNV--ETVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcce--EEEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            689999999999999999998873 33445544433  334343  4678899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHHHHHH
Q 040481           98 ITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      ++++.++..+..|+..+.... ..+.|+++|+||+|+....  ..++..+...     ...++++++||++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~  153 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHH
Confidence            999999999988887765543 3678999999999987533  2333333322     2356799999999999999999


Q ss_pred             HHHH
Q 040481          172 IVIR  175 (222)
Q Consensus       172 ~i~~  175 (222)
                      +|+.
T Consensus       154 ~l~~  157 (158)
T cd00878         154 WLLQ  157 (158)
T ss_pred             HHhh
Confidence            8864

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.94  E-value=2e-26  Score=169.83  Aligned_cols=151  Identities=23%  Similarity=0.353  Sum_probs=113.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|++++|||||+++|....+.. ..++.+.++.  .+.+  ..+.+++||+||+..+...+..++..+|++|+|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TVTY--KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            68999999999999999998776543 3455444432  3333  35678999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHH-HhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHHHHHH
Q 040481           98 ITRRTTFDSISRWLDEL-KTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i-~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      ++++.++....+++..+ ......++|+++|+||+|+.+..  ...+......     ..+.+++++||++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  153 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHH
Confidence            99998888776655544 33333568999999999986432  2222221111     1235699999999999999999


Q ss_pred             HHHH
Q 040481          172 IVIR  175 (222)
Q Consensus       172 ~i~~  175 (222)
                      +|++
T Consensus       154 ~l~~  157 (158)
T cd04151         154 WLVN  157 (158)
T ss_pred             HHhc
Confidence            9864

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.94  E-value=2.1e-25  Score=167.16  Aligned_cols=157  Identities=29%  Similarity=0.438  Sum_probs=124.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|+.+||||||+++|..+.... ..||.+  +....+.+.+  +.+.+||++|+..+...|..++..+|++|
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g--~~~~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~iI   86 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIG--FNIEEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGII   86 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESS--EEEEEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccc-cCcccc--cccceeeeCc--EEEEEEeccccccccccceeeccccceeE
Confidence            567899999999999999999998765433 345544  4445555655  56789999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH------cCCeEEEEccCCCCCH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA------EGLFFMETSALDSTNV  166 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~------~~~~~~~~sa~~~~~i  166 (222)
                      ||+|.++.+.+.+....+..+... ....+|++|++||.|+.+  ....+++......      ..+.++.|||.+|.|+
T Consensus        87 fVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~--~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv  164 (175)
T PF00025_consen   87 FVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPD--AMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGV  164 (175)
T ss_dssp             EEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTT--SSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTH
T ss_pred             EEEecccceeecccccchhhhcchhhcccceEEEEeccccccC--cchhhHHHhhhhhhhcccCCceEEEeeeccCCcCH
Confidence            999999999998887777666554 336789999999999874  3455555443322      3455899999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          167 KSAFEIVIREI  177 (222)
Q Consensus       167 ~~~~~~i~~~~  177 (222)
                      .+.|+||.+.+
T Consensus       165 ~e~l~WL~~~~  175 (175)
T PF00025_consen  165 DEGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC
Confidence            99999998864

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. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.94  E-value=6.3e-25  Score=165.93  Aligned_cols=156  Identities=21%  Similarity=0.278  Sum_probs=119.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||++++.+..+.. +.++.+..  ...+.+.  .+.+.+||+||+..+...+..++..+|++|
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~--~~~~~~~--~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPT--SEELAIG--NIKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccccc--eEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            445899999999999999999999876542 23443332  2333333  367889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH------------cCCeEEEEcc
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA------------EGLFFMETSA  160 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~sa  160 (222)
                      +|+|++++.++.....++..+.... ..+.|+++|+||.|+..  .+..+++.+....            ....+++|||
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa  167 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSV  167 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeec
Confidence            9999999999988887777665432 25689999999999863  3455554433311            1334899999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 040481          161 LDSTNVKSAFEIVIRE  176 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~  176 (222)
                      +++.|++++++||+.+
T Consensus       168 ~~~~g~~~~~~wl~~~  183 (184)
T smart00178      168 VRRMGYGEGFKWLSQY  183 (184)
T ss_pred             ccCCChHHHHHHHHhh
Confidence            9999999999999864

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.93  E-value=1.4e-24  Score=153.97  Aligned_cols=162  Identities=23%  Similarity=0.386  Sum_probs=129.3

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ++++++|+++|..|+||||++++|.+.. .....|+.+  +...+..+.  .+.+++||++|+..+...|+.||.++|++
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~--~~~L~iwDvGGq~~lr~~W~nYfestdgl   87 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYK--GYTLNIWDVGGQKTLRSYWKNYFESTDGL   87 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEec--ceEEEEEEcCCcchhHHHHHHhhhccCeE
Confidence            4568999999999999999999998876 233334444  555555554  47788999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHH------HHHHHHHcCCeEEEEccCCCCC
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEE------GKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~------~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      |+|||.+|+..|+.....++.+... .-.+.|++|++||.|++.  .+..+.      ..+++....++++.|||.+|++
T Consensus        88 IwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~--~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~  165 (185)
T KOG0073|consen   88 IWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPG--ALSLEEISKALDLEELAKSHHWRLVKCSAVTGED  165 (185)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCcc--ccCHHHHHHhhCHHHhccccCceEEEEecccccc
Confidence            9999999999998887766655442 336689999999999973  222222      2344566789999999999999


Q ss_pred             HHHHHHHHHHHHHHHh
Q 040481          166 VKSAFEIVIREIYSNV  181 (222)
Q Consensus       166 i~~~~~~i~~~~~~~~  181 (222)
                      +.+.++|+++.+.++.
T Consensus       166 l~~gidWL~~~l~~r~  181 (185)
T KOG0073|consen  166 LLEGIDWLCDDLMSRL  181 (185)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999998743

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.93  E-value=6.7e-25  Score=163.13  Aligned_cols=156  Identities=20%  Similarity=0.203  Sum_probs=110.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh---------hhHHHhhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR---------AVTSAYYR   87 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~   87 (222)
                      ++|+++|++|+|||||+++|.+........+..+.+.....+..  ..+.+.+|||||.....         ........
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~   78 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDY--KYLRWQVIDTPGLLDRPLEERNTIEMQAITALAH   78 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEcc--CceEEEEEECCCcCCccccCCchHHHHHHHHHHh
Confidence            37999999999999999999998764332222233333333323  35678999999973210         11111223


Q ss_pred             CCCEEEEEEECCChhh--HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           88 GAVGALIVYDITRRTT--FDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      .+|++|+|+|+++..+  ++....|+..+.... .+.|+++|+||+|+.....+..  ...+....+++++++||++|.|
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~g  155 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEG  155 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCC
Confidence            4689999999998764  356667887776543 4689999999999975433322  4455566678899999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREI  177 (222)
Q Consensus       166 i~~~~~~i~~~~  177 (222)
                      ++++|+++.+.+
T Consensus       156 i~~l~~~l~~~~  167 (168)
T cd01897         156 VDEVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998876

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.93  E-value=9e-25  Score=160.25  Aligned_cols=151  Identities=24%  Similarity=0.408  Sum_probs=119.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEEC
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDI   98 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~   98 (222)
                      |+++|++|||||||+++|.+..+...+.++.+..+..  +....  +.+.+||+||+..+...+..++..+|++++|+|+
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~   77 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDA   77 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEEC
Confidence            7999999999999999999998888777777655442  33333  6789999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEEccCCCCCHHHHHHH
Q 040481           99 TRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        99 ~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      ++..++.....|+..+.... ..++|+++|+||+|+.+...  ........     ....++++++|+++|.|+++++++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  155 (159)
T cd04159          78 ADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDW  155 (159)
T ss_pred             CCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEEEEeccCCChHHHHHH
Confidence            99999888877777665432 25689999999999865322  22221111     123467899999999999999998


Q ss_pred             HHH
Q 040481          173 VIR  175 (222)
Q Consensus       173 i~~  175 (222)
                      |.+
T Consensus       156 l~~  158 (159)
T cd04159         156 LIK  158 (159)
T ss_pred             Hhh
Confidence            865

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd01898 Obg Obg subfamily

Probab=99.93  E-value=8.2e-25  Score=162.90  Aligned_cols=157  Identities=18%  Similarity=0.121  Sum_probs=112.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----hhhhHHH---hhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----FRAVTSA---YYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~---~~~~~d   90 (222)
                      +|+++|.+|||||||+++|.+........+..+.+.....+.+.+. ..+.+|||||...    ...+...   .+..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~~-~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDG-RSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCCC-CeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            6899999999999999999876542222222222333333333332 4688999999632    1122233   345699


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEEccCCCCCH
Q 040481           91 GALIVYDITRR-TTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEA-EGLFFMETSALDSTNV  166 (222)
Q Consensus        91 ~vi~v~d~~~~-~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i  166 (222)
                      ++++|+|++++ .+++.+..|.+.+.....  ...|+++|+||+|+.+.... .+....+... .+.+++++||+++.|+
T Consensus        81 ~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi  159 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGL  159 (170)
T ss_pred             EEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCH
Confidence            99999999999 789999999888876543  46899999999999764443 3344455555 3788999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          167 KSAFEIVIRE  176 (222)
Q Consensus       167 ~~~~~~i~~~  176 (222)
                      +++|+++.+.
T Consensus       160 ~~l~~~i~~~  169 (170)
T cd01898         160 DELLRKLAEL  169 (170)
T ss_pred             HHHHHHHHhh
Confidence            9999998864

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.93  E-value=6.1e-24  Score=155.39  Aligned_cols=157  Identities=38%  Similarity=0.525  Sum_probs=128.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|+|||||++++.+......+.++.+.++....+..++..+.+.+||+||+..+...+..+++.+++++++
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            37999999999999999999999987777777777777777677777668899999999999988888999999999999


Q ss_pred             EECCCh-hhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           96 YDITRR-TTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        96 ~d~~~~-~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|.... .++.... .|...+........|+++++||.|+.... ........+......+++++||.++.|+.++|++|
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence            999887 6666665 67766666554478999999999997543 44444445555556789999999999999999865

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd01890 LepA LepA subfamily

Probab=99.93  E-value=2.8e-24  Score=161.43  Aligned_cols=154  Identities=23%  Similarity=0.307  Sum_probs=113.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc-------CCCCCCC------ccceeEEEEEEE--E---CCeEEEEEEEeCCCcchhh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE-------FNPHSKA------TIGVEFQTQSME--I---DGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~-------~~~~~~~------~~~~~~~~~~~~--~---~~~~~~~~i~D~~G~~~~~   79 (222)
                      +|+++|++++|||||+++|++..       ....+.+      +.+.++....+.  +   ++..+.+.+|||||+..+.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            68999999999999999998742       1111212      123333333322  2   5667889999999999999


Q ss_pred             hhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe---EE
Q 040481           80 AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF---FM  156 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~  156 (222)
                      ..+..+++.+|++|+|||++++.++.....|....    ..++|+++|+||+|+.+..  ..+...+++..++++   ++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~  155 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAI  155 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEE
Confidence            89999999999999999999987766666665433    2457999999999986422  122334556666653   89


Q ss_pred             EEccCCCCCHHHHHHHHHHHH
Q 040481          157 ETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       157 ~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ++||++|.|++++|+++...+
T Consensus       156 ~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         156 LVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             EeeccCCCCHHHHHHHHHhhC
Confidence            999999999999999988754

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.

>cd01878 HflX HflX subfamily

Probab=99.93  E-value=1.5e-24  Score=166.42  Aligned_cols=156  Identities=19%  Similarity=0.149  Sum_probs=115.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch---------hhhhHHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER---------FRAVTSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~   84 (222)
                      ...++|+|+|++|||||||++++++........+..+.+.....+.+.+. ..+.+||+||...         +...+ .
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~  116 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-E  116 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-H
Confidence            44589999999999999999999998654333333333444444555443 2678999999732         12111 2


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      .+..+|++++|+|++++.++.....|...+......++|+++|+||+|+.+.....     ..+...+.+++++||+++.
T Consensus       117 ~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~-----~~~~~~~~~~~~~Sa~~~~  191 (204)
T cd01878         117 EVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE-----ERLEAGRPDAVFISAKTGE  191 (204)
T ss_pred             HHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH-----HHhhcCCCceEEEEcCCCC
Confidence            36789999999999999888887778877776655678999999999986533221     3445567789999999999


Q ss_pred             CHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIRE  176 (222)
Q Consensus       165 ~i~~~~~~i~~~  176 (222)
                      |+++++++|.+.
T Consensus       192 gi~~l~~~L~~~  203 (204)
T cd01878         192 GLDELLEAIEEL  203 (204)
T ss_pred             CHHHHHHHHHhh
Confidence            999999998765

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.92  E-value=5.9e-24  Score=173.43  Aligned_cols=162  Identities=17%  Similarity=0.089  Sum_probs=122.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hhhhHHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FRAVTSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   90 (222)
                      .|+|+|.|+||||||+++|++........+.++.......+.+. ....+.+||+||..+       +...+...++.++
T Consensus       160 dVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~  238 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTR  238 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcC
Confidence            68999999999999999999865433333444555555555553 234578999999632       2223334567899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      ++|+|||+++..+++.+..|..++..+..  ...|+++|+||+|+.+......+....++...+++++++||+++.|+++
T Consensus       239 vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~e  318 (335)
T PRK12299        239 LLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLDE  318 (335)
T ss_pred             EEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHH
Confidence            99999999988889999999999987654  4689999999999975444444445555566678899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          169 AFEIVIREIYSN  180 (222)
Q Consensus       169 ~~~~i~~~~~~~  180 (222)
                      ++++|.+.+.+.
T Consensus       319 L~~~L~~~l~~~  330 (335)
T PRK12299        319 LLRALWELLEEA  330 (335)
T ss_pred             HHHHHHHHHHhh
Confidence            999998877643

>cd04155 Arl3 Arl3 subfamily

Probab=99.92  E-value=1.3e-23  Score=156.99  Aligned_cols=152  Identities=24%  Similarity=0.358  Sum_probs=115.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||++++.+..+.. ..++.+..  ...+...+  ..+.+||+||...+...+..+++.+|+++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~-~~~t~g~~--~~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii   86 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISH-ITPTQGFN--IKTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLI   86 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcc-cCCCCCcc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEE
Confidence            447899999999999999999999876532 34444433  33344444  56789999999988888888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--------CeEEEEccCCCC
Q 040481           94 IVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG--------LFFMETSALDST  164 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~--------~~~~~~sa~~~~  164 (222)
                      +|+|+.+..++.....|+..+... ...++|+++++||.|+.+..  ..++   +....+        .+++++||++|.
T Consensus        87 ~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~--~~~~---i~~~l~~~~~~~~~~~~~~~Sa~~~~  161 (173)
T cd04155          87 YVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAA--PAEE---IAEALNLHDLRDRTWHIQACSAKTGE  161 (173)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCC--CHHH---HHHHcCCcccCCCeEEEEEeECCCCC
Confidence            999999998888887776665443 23568999999999986432  1222   222222        247899999999


Q ss_pred             CHHHHHHHHHH
Q 040481          165 NVKSAFEIVIR  175 (222)
Q Consensus       165 ~i~~~~~~i~~  175 (222)
                      |++++|+||++
T Consensus       162 gi~~~~~~l~~  172 (173)
T cd04155         162 GLQEGMNWVCK  172 (173)
T ss_pred             CHHHHHHHHhc
Confidence            99999999875

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.

>cd04171 SelB SelB subfamily

Probab=99.91  E-value=2.5e-23  Score=153.80  Aligned_cols=151  Identities=19%  Similarity=0.174  Sum_probs=104.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc---CCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE---FNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      .|+++|+++||||||+++|.+..   +.....++++.+.....+.+.. ...+.+|||||++.+......++..+|++++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~   80 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLL   80 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEE
Confidence            58999999999999999998643   2223333444444444444442 4578899999999887777778899999999


Q ss_pred             EEECCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHH---cCCeEEEEccCCCCCH
Q 040481           95 VYDITR---RTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTEEGKSLAEA---EGLFFMETSALDSTNV  166 (222)
Q Consensus        95 v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~~~sa~~~~~i  166 (222)
                      |+|+++   .++++.    +..+...  ...|+++|+||+|+.....  ...++..+....   .+.+++++||+++.|+
T Consensus        81 V~d~~~~~~~~~~~~----~~~~~~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  154 (164)
T cd04171          81 VVAADEGIMPQTREH----LEILELL--GIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGI  154 (164)
T ss_pred             EEECCCCccHhHHHH----HHHHHHh--CCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCH
Confidence            999987   333332    2222221  1238999999999965321  112233333333   4678999999999999


Q ss_pred             HHHHHHHHH
Q 040481          167 KSAFEIVIR  175 (222)
Q Consensus       167 ~~~~~~i~~  175 (222)
                      +++++.+..
T Consensus       155 ~~l~~~l~~  163 (164)
T cd04171         155 EELKEYLDE  163 (164)
T ss_pred             HHHHHHHhh
Confidence            999987653

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.91  E-value=8.2e-24  Score=153.16  Aligned_cols=134  Identities=22%  Similarity=0.245  Sum_probs=99.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc-----hhhhhHHHhhcCCCEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE-----RFRAVTSAYYRGAVGA   92 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~v   92 (222)
                      ||+++|++|||||||+++|.+....  +.++.+.+       +..     .+||+||..     .+..... .++.+|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~~~-------~~~-----~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQAVE-------YND-----GAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccceeEE-------EcC-----eeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            7999999999999999999887642  23332222       221     589999972     2333333 58999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFE  171 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~  171 (222)
                      |+|||++++.++.. ..|...+      ..|+++|+||+|+.+ .....++..+++...+. +++++||++|.|++++|+
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  138 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALVD  138 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHH
Confidence            99999999988754 3443322      139999999999965 33455666777777775 799999999999999998


Q ss_pred             HHH
Q 040481          172 IVI  174 (222)
Q Consensus       172 ~i~  174 (222)
                      ++.
T Consensus       139 ~l~  141 (142)
T TIGR02528       139 YLN  141 (142)
T ss_pred             HHh
Confidence            764

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.91  E-value=1.2e-22  Score=157.45  Aligned_cols=168  Identities=38%  Similarity=0.573  Sum_probs=138.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||+++|.+..+...+.++.+..+...........+.+.+||++|++.+...+..++..++++++|
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~   84 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIV   84 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEE
Confidence            38999999999999999999999999998888887777777776666688899999999999999999999999999999


Q ss_pred             EECCCh-hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHc---CCeEEEEc
Q 040481           96 YDITRR-TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR------------NVSTEEGKSLAEAE---GLFFMETS  159 (222)
Q Consensus        96 ~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~------------~~~~~~~~~~~~~~---~~~~~~~s  159 (222)
                      +|..+. .+++....|...+........|+++|+||+|+....            ..............   ...++++|
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  164 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETS  164 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEee
Confidence            999994 455666889999888776678999999999997653            22222222222222   33489999


Q ss_pred             cC--CCCCHHHHHHHHHHHHHHHhhh
Q 040481          160 AL--DSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       160 a~--~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                      ++  ++.++.++|..++..+.+....
T Consensus       165 ~~~~~~~~v~~~~~~~~~~~~~~~~~  190 (219)
T COG1100         165 AKSLTGPNVNELFKELLRKLLEEIEK  190 (219)
T ss_pred             cccCCCcCHHHHHHHHHHHHHHhhhh
Confidence            99  9999999999999988766544

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.91  E-value=4.6e-23  Score=153.08  Aligned_cols=157  Identities=16%  Similarity=0.136  Sum_probs=109.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      .|+++|++++|||||+++|....+.....+..+.+.....+... .....+.+|||||+..+...+..++..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            58999999999999999999887765544444444433344333 13567889999999998888888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-HHHHHHHHH------HcCCeEEEEccCCCCCHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS-TEEGKSLAE------AEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~-~~~~~~~~~------~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |+++...... ...+..+..   .++|+++|+||+|+....... .+....+..      ...++++++|+++|.|+.++
T Consensus        82 d~~~~~~~~~-~~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (168)
T cd01887          82 AADDGVMPQT-IEAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDL  157 (168)
T ss_pred             ECCCCccHHH-HHHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHH
Confidence            9988532111 122222332   457999999999986422110 111111111      12367999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          170 FEIVIREIY  178 (222)
Q Consensus       170 ~~~i~~~~~  178 (222)
                      +++|.+...
T Consensus       158 ~~~l~~~~~  166 (168)
T cd01887         158 LEAILLLAE  166 (168)
T ss_pred             HHHHHHhhh
Confidence            999887643

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.90  E-value=2.9e-22  Score=145.08  Aligned_cols=153  Identities=46%  Similarity=0.768  Sum_probs=121.9

Q ss_pred             EEcCCCCCHHHHHHHHhcCcC-CCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECC
Q 040481           21 IIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDIT   99 (222)
Q Consensus        21 i~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~   99 (222)
                      ++|++|+|||||++++.+... .....++. .+..............+.+||+||...+...+..+++.+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999998876 44444554 6666666666677888999999999988888888999999999999999


Q ss_pred             ChhhHHHHHHH-HHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH-HHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481          100 RRTTFDSISRW-LDELKTHSDTTVARMLVGNKCDLESIRNVSTEE-GKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus       100 ~~~s~~~~~~~-~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~-~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ++.++..+..| ...+........|+++|+||.|+.......... .........++++++|+.++.|+.+++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            99998888777 333333445678999999999987544333322 4455666688999999999999999999875

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

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.90  E-value=1.9e-22  Score=148.28  Aligned_cols=147  Identities=17%  Similarity=0.168  Sum_probs=109.9

Q ss_pred             EEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh------hHHHhhc--CCCEE
Q 040481           21 IIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA------VTSAYYR--GAVGA   92 (222)
Q Consensus        21 i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~~--~~d~v   92 (222)
                      ++|.+|+|||||++++.+........+.++.+.....+.+++  ..+.+|||||...+..      .+..++.  .+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998765444445555566556666665  4678999999876543      3455564  89999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|+|+.+....   ..|...+..   .++|+++|+||+|+.+...+... ...++..++++++++||.++.|+++++++
T Consensus        79 i~v~d~~~~~~~---~~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~~~-~~~~~~~~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879          79 VNVVDATNLERN---LYLTLQLLE---LGLPVVVALNMIDEAEKRGIKID-LDKLSELLGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             EEEeeCCcchhH---HHHHHHHHH---cCCCEEEEEehhhhcccccchhh-HHHHHHhhCCCeEEEEccCCCCHHHHHHH
Confidence            999999886542   234433333   35799999999999764444333 45677778899999999999999999998


Q ss_pred             HHHH
Q 040481          173 VIRE  176 (222)
Q Consensus       173 i~~~  176 (222)
                      +.+.
T Consensus       152 l~~~  155 (158)
T cd01879         152 IAEL  155 (158)
T ss_pred             HHHH
Confidence            8775

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.

>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=99.90  E-value=2.7e-23  Score=150.84  Aligned_cols=148  Identities=18%  Similarity=0.209  Sum_probs=107.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch------hhhhHHHhh--cC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER------FRAVTSAYY--RG   88 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------~~~~~~~~~--~~   88 (222)
                      |+|+++|.|+||||||+|+|++........|..+.+.....+.+.+  ..+.++|+||.-.      -......++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            6899999999999999999999987666677778888877887777  4567999999322      123334444  68


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      .|++|.|+|+++.+.-   ......+   .+.++|+++++||+|+.....+.. ....+.+.++++++++||+++.|+++
T Consensus        79 ~D~ii~VvDa~~l~r~---l~l~~ql---~e~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~  151 (156)
T PF02421_consen   79 PDLIIVVVDATNLERN---LYLTLQL---LELGIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDE  151 (156)
T ss_dssp             SSEEEEEEEGGGHHHH---HHHHHHH---HHTTSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHH
T ss_pred             CCEEEEECCCCCHHHH---HHHHHHH---HHcCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHH
Confidence            9999999999875431   1222222   235689999999999876555443 35668888999999999999999999


Q ss_pred             HHHHH
Q 040481          169 AFEIV  173 (222)
Q Consensus       169 ~~~~i  173 (222)
                      +++.|
T Consensus       152 L~~~I  156 (156)
T PF02421_consen  152 LKDAI  156 (156)
T ss_dssp             HHHHH
T ss_pred             HHhhC
Confidence            98754

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 ....

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.90  E-value=2.1e-22  Score=164.25  Aligned_cols=159  Identities=19%  Similarity=0.122  Sum_probs=116.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hhhhHHHhhcCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FRAVTSAYYRGA   89 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~   89 (222)
                      ..|+++|.++||||||+++|++........+.++.......+.+++ ...+.+||+||...       ....+...+..+
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhiera  236 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERT  236 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhh
Confidence            3789999999999999999998654333333334444445555543 35678999999642       112233345689


Q ss_pred             CEEEEEEECCCh---hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           90 VGALIVYDITRR---TTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        90 d~vi~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      +++|+|+|+++.   .+++.+..|.+++..+..  ...|++||+||+|+.+... ..+....++...+.+++++||+++.
T Consensus       237 d~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~  315 (329)
T TIGR02729       237 RVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGE  315 (329)
T ss_pred             CEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCc
Confidence            999999999976   678888888888876643  4689999999999975432 2344555666677889999999999


Q ss_pred             CHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREI  177 (222)
Q Consensus       165 ~i~~~~~~i~~~~  177 (222)
                      |++++++++.+.+
T Consensus       316 GI~eL~~~I~~~l  328 (329)
T TIGR02729       316 GLDELLYALAELL  328 (329)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999887753

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>PRK04213 GTP-binding protein; Provisional

Probab=99.90  E-value=3.3e-23  Score=158.61  Aligned_cols=153  Identities=20%  Similarity=0.246  Sum_probs=102.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC-----------cchhhhhH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG-----------QERFRAVT   82 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~   82 (222)
                      ...++|+++|++|||||||+++|.+..+.....++.  +.....+.+.    .+.+||+||           .+.+...+
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~--t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGV--TRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEI   80 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCce--eeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHH
Confidence            345799999999999999999999887654444433  3333333333    478999999           34455555


Q ss_pred             HHhhc----CCCEEEEEEECCChhhH-H---------HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH
Q 040481           83 SAYYR----GAVGALIVYDITRRTTF-D---------SISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLA  148 (222)
Q Consensus        83 ~~~~~----~~d~vi~v~d~~~~~s~-~---------~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~  148 (222)
                      ..++.    .++++++|+|..+...+ +         ....++..+.   ..++|+++|+||+|+.+..   .+...+++
T Consensus        81 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~p~iiv~NK~Dl~~~~---~~~~~~~~  154 (201)
T PRK04213         81 VRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR---ELGIPPIVAVNKMDKIKNR---DEVLDEIA  154 (201)
T ss_pred             HHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHH---HcCCCeEEEEECccccCcH---HHHHHHHH
Confidence            55543    45788888888653221 0         0011122222   2468999999999996433   33455556


Q ss_pred             HHcCC---------eEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          149 EAEGL---------FFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       149 ~~~~~---------~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      ..+++         +++++||++| |+++++++|.+.+.+
T Consensus       155 ~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        155 ERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             HHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence            65554         4899999999 999999999887644

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.89  E-value=4e-22  Score=163.93  Aligned_cols=154  Identities=19%  Similarity=0.158  Sum_probs=112.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc---------hhhhhHHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE---------RFRAVTSAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~   85 (222)
                      ..++|+++|.+++|||||+|+|++........+..+.+.....+.+.+ +..+.+|||+|..         .+... ...
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~-~~~i~l~DT~G~~~~l~~~lie~f~~t-le~  265 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPD-GGEVLLTDTVGFIRDLPHELVAAFRAT-LEE  265 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCC-CceEEEEecCcccccCCHHHHHHHHHH-HHH
Confidence            458999999999999999999999775433334445556666666643 2468899999962         22222 235


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      +..+|++|+|+|++++.+++.+..|...+......+.|+++|+||+|+.+...     .... .....+++++||++|.|
T Consensus       266 ~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~~~-~~~~~~~i~iSAktg~G  339 (351)
T TIGR03156       266 VREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IERL-EEGYPEAVFVSAKTGEG  339 (351)
T ss_pred             HHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HHHH-HhCCCCEEEEEccCCCC
Confidence            78999999999999998887777776666665445689999999999964221     1111 12234689999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          166 VKSAFEIVIRE  176 (222)
Q Consensus       166 i~~~~~~i~~~  176 (222)
                      +++++++|.+.
T Consensus       340 I~eL~~~I~~~  350 (351)
T TIGR03156       340 LDLLLEAIAER  350 (351)
T ss_pred             HHHHHHHHHhh
Confidence            99999988653

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).

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.89  E-value=4.7e-23  Score=144.94  Aligned_cols=168  Identities=27%  Similarity=0.545  Sum_probs=147.7

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ...-.+||.++|++..|||||+-.+.++.+.+++..+.|..+.-+.+.+.+..+.+.+||.+|++++..+.+.....+-+
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsva   95 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVA   95 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEE
Confidence            33445899999999999999999999999988899999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc----C-CCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES----I-RNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~----~-~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      ++|+||++.+.++..+..|++..+...+..+| |+||+|.|+--    + .+-....++.+++..+++++.+|+..+.||
T Consensus        96 IlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv  174 (205)
T KOG1673|consen   96 ILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINV  174 (205)
T ss_pred             EEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccH
Confidence            99999999999999999999999888888888 88999999631    1 111223467788889999999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYSN  180 (222)
Q Consensus       167 ~~~~~~i~~~~~~~  180 (222)
                      ..+|+.+.-+++..
T Consensus       175 ~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  175 QKIFKIVLAKLFNL  188 (205)
T ss_pred             HHHHHHHHHHHhCC
Confidence            99999888877754

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.89  E-value=1.1e-22  Score=154.99  Aligned_cols=149  Identities=19%  Similarity=0.191  Sum_probs=105.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc--CcCCCCC------------CCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhH
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR--NEFNPHS------------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVT   82 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   82 (222)
                      -+|+++|.+++|||||+++|+.  +.+...+            ..+.+.++......+....+.+.+||+||++.+...+
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            3899999999999999999987  3433322            1223444555555555566788999999999999999


Q ss_pred             HHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHHHH-------HcCCe
Q 040481           83 SAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN-VSTEEGKSLAE-------AEGLF  154 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~-~~~~~~~~~~~-------~~~~~  154 (222)
                      ..+++.+|++++|||+++.. +.....++..+..   .++|+++|+||+|+.+... ...+++.++..       ..+++
T Consensus        83 ~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFP  158 (194)
T ss_pred             HHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccC
Confidence            99999999999999998752 2333344444433   4579999999999964322 11233444432       23678


Q ss_pred             EEEEccCCCCCHHHH
Q 040481          155 FMETSALDSTNVKSA  169 (222)
Q Consensus       155 ~~~~sa~~~~~i~~~  169 (222)
                      ++++||++|.|+.+.
T Consensus       159 iv~~Sa~~g~~~~~~  173 (194)
T cd01891         159 VLYASAKNGWASLNL  173 (194)
T ss_pred             EEEeehhcccccccc
Confidence            999999999988654

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

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.89  E-value=1.5e-22  Score=147.15  Aligned_cols=160  Identities=19%  Similarity=0.358  Sum_probs=128.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .....+|+++|-.++||||++++|..++.... .||.|..++...  +.  .+.|.+||++|+..+...|+.++++.+++
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE~v~--yk--n~~f~vWDvGGq~k~R~lW~~Y~~~t~~l   88 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVETVE--YK--NISFTVWDVGGQEKLRPLWKHYFQNTQGL   88 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccccceeEEE--Ec--ceEEEEEecCCCcccccchhhhccCCcEE
Confidence            45568999999999999999999988776554 677665555443  44  57788999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNV  166 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i  166 (222)
                      |||+|-+|++-+..+...+..+..... ...|+++.+||.|++..  ++..++.+...     ...+.+..|+|.+|+|+
T Consensus        89 IfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a--ls~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL  166 (181)
T KOG0070|consen   89 IFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA--LSAAEITNKLGLHSLRSRNWHIQSTCAISGEGL  166 (181)
T ss_pred             EEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcccc--CCHHHHHhHhhhhccCCCCcEEeeccccccccH
Confidence            999999999999999777776666654 67899999999999743  33333333322     23456888999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYS  179 (222)
Q Consensus       167 ~~~~~~i~~~~~~  179 (222)
                      .+.++|+...+..
T Consensus       167 ~egl~wl~~~~~~  179 (181)
T KOG0070|consen  167 YEGLDWLSNNLKK  179 (181)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987754

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.89  E-value=4.1e-22  Score=149.02  Aligned_cols=155  Identities=23%  Similarity=0.186  Sum_probs=108.4

Q ss_pred             EEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh----hh---hHHHhhcCCCEEE
Q 040481           21 IIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF----RA---VTSAYYRGAVGAL   93 (222)
Q Consensus        21 i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~---~~~~~~~~~d~vi   93 (222)
                      ++|++|||||||+++|.+........+.++.+.....+.+.+ ...+.+||+||....    ..   .....++.+|+++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPD-GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCC-CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            589999999999999998865222222223333333343441 456789999996321    11   2234578899999


Q ss_pred             EEEECCCh------hhHHHHHHHHHHHHhcCC-------CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           94 IVYDITRR------TTFDSISRWLDELKTHSD-------TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        94 ~v~d~~~~------~s~~~~~~~~~~i~~~~~-------~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      +|+|+.+.      .+++.+..|...+.....       ...|+++|+||+|+..................+..++++||
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  159 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISA  159 (176)
T ss_pred             EEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEeh
Confidence            99999988      577777777777765432       36899999999999754443333233444555778999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 040481          161 LDSTNVKSAFEIVIRE  176 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~  176 (222)
                      +++.|++++++++++.
T Consensus       160 ~~~~gl~~l~~~l~~~  175 (176)
T cd01881         160 KTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhhcCHHHHHHHHHhh
Confidence            9999999999988764

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>TIGR00436 era GTP-binding protein Era

Probab=99.88  E-value=1.1e-21  Score=156.61  Aligned_cols=153  Identities=20%  Similarity=0.139  Sum_probs=104.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeEEEEEEEeCCCcchhh--------hhHHHhhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR--------AVTSAYYRG   88 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~   88 (222)
                      +|+++|.+|||||||+|+|++......+. +.++... ...+...+ ..++.+|||||.....        ......+..
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~-i~~i~~~~-~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNR-ISGIHTTG-ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCc-EEEEEEcC-CcEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            68999999999999999999987643322 2222222 22222222 3468899999964321        123456789


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVK  167 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  167 (222)
                      +|++++|+|+++..+.+  ..++..+..   .+.|+++|+||+|+.+.... .+....+....+. +++++||++|.|++
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDKL-LPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHHH-HHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            99999999999876654  334444433   45799999999999642221 2233344444443 79999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          168 SAFEIVIREIY  178 (222)
Q Consensus       168 ~~~~~i~~~~~  178 (222)
                      ++++++.+.+.
T Consensus       154 ~L~~~l~~~l~  164 (270)
T TIGR00436       154 FLAAFIEVHLP  164 (270)
T ss_pred             HHHHHHHHhCC
Confidence            99998887653

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.88  E-value=7.8e-22  Score=138.52  Aligned_cols=114  Identities=32%  Similarity=0.638  Sum_probs=89.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCC--CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFN--PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      ||+|+|++|||||||+++|.+....  ....+..+.++.............+++||++|.+.+...+..++..+|++|+|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999998876  22334444555555666777777799999999999888888889999999999


Q ss_pred             EECCChhhHHHHHH---HHHHHHhcCCCCCcEEEEEeCCC
Q 040481           96 YDITRRTTFDSISR---WLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        96 ~d~~~~~s~~~~~~---~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      ||++++.+|+.+.+   |+..+.... ..+|+++|+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence            99999999999854   555555543 4499999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.88  E-value=1.5e-21  Score=143.00  Aligned_cols=146  Identities=23%  Similarity=0.218  Sum_probs=106.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh--------hHHHhhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA--------VTSAYYR   87 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~   87 (222)
                      ++|+++|++|+|||||++++.+..... ...+.++.+.....+...  ...+.+||+||...+..        ....++.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~   79 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG--GIPVRLIDTAGIRETEDEIEKIGIERAREAIE   79 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC--CEEEEEEECCCcCCCcchHHHHHHHHHHHHHh
Confidence            589999999999999999999876432 223333444444444444  35678999999755432        2335678


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      .+|++++|+|++++.+......+..      ....|+++|+||.|+.+....       .......+++++||+++.|++
T Consensus        80 ~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~  146 (157)
T cd04164          80 EADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLD  146 (157)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHH
Confidence            9999999999998877655544332      345799999999999754333       344556789999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          168 SAFEIVIREI  177 (222)
Q Consensus       168 ~~~~~i~~~~  177 (222)
                      +++++|.+.+
T Consensus       147 ~l~~~l~~~~  156 (157)
T cd04164         147 ELKEALLELA  156 (157)
T ss_pred             HHHHHHHHhh
Confidence            9999887643

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.88  E-value=1.3e-21  Score=167.36  Aligned_cols=168  Identities=22%  Similarity=0.184  Sum_probs=116.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCc----------chhhhh-H
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ----------ERFRAV-T   82 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~-~   82 (222)
                      ..++|+++|.++||||||+++|++.... ....++++.+.....+..++..  +.+|||||.          +.+... .
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~--~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKT--WRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEE--EEEEECCCccccccccchHHHHHHHHH
Confidence            4589999999999999999999988653 3334555555555556666654  569999995          223322 2


Q ss_pred             HHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHH-HHHHHcCCeEEEEc
Q 040481           83 SAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV--STEEGK-SLAEAEGLFFMETS  159 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~-~~~~~~~~~~~~~s  159 (222)
                      ..+++.+|++|+|+|++++.++..+. ++..+..   .++|+++|+||+|+.+....  ...++. .+.....++++++|
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~S  363 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNIS  363 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEE
Confidence            34678999999999999998877653 3444433   46799999999999742211  111111 22222357899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHHhhhhccCCc
Q 040481          160 ALDSTNVKSAFEIVIREIYSNVSRKVLNSD  189 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~~~~~~~~~~~s~  189 (222)
                      |++|.|++++|..+.+ +++....+.+++.
T Consensus       364 Ak~g~gv~~lf~~i~~-~~~~~~~~i~t~~  392 (472)
T PRK03003        364 AKTGRAVDKLVPALET-ALESWDTRIPTGR  392 (472)
T ss_pred             CCCCCCHHHHHHHHHH-HHHHhcccCCHHH
Confidence            9999999999998876 4555555555443

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.88  E-value=2.6e-21  Score=146.21  Aligned_cols=156  Identities=19%  Similarity=0.210  Sum_probs=108.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCcc--------------ceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHH
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATI--------------GVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTS   83 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   83 (222)
                      +|+++|.+|+|||||+++|++...........              +.........+......+.+||+||...+...+.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   80 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVI   80 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHH
Confidence            48999999999999999998876654332111              1122222222222345688999999998888888


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHH-----------
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEGKSLAEA-----------  150 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~-----------  150 (222)
                      .+++.+|++++|+|+.++.+... ..++..+..   .+.|+++|+||+|+.......  .+.+.+....           
T Consensus        81 ~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (189)
T cd00881          81 RGLSVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGT  156 (189)
T ss_pred             HHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhc
Confidence            99999999999999988765332 233333333   457999999999997522211  2223333332           


Q ss_pred             ---cCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          151 ---EGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       151 ---~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                         ...+++++||++|.|+++++.++.+.+
T Consensus       157 ~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         157 RNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             ccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence               357799999999999999999888764

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.

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.88  E-value=6.5e-21  Score=133.87  Aligned_cols=165  Identities=22%  Similarity=0.342  Sum_probs=135.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCC--CCCCccceeEEEEEE-EECCeEEEEEEEeCCCcchh-hhhHHHhhcCCCE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNP--HSKATIGVEFQTQSM-EIDGKEVKAQIWDTAGQERF-RAVTSAYYRGAVG   91 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~d~   91 (222)
                      .-||+++|..++|||+++..|+.+....  +..+|+. +++...+ ..++..-.+.++||.|.... ..+-++++.-+|+
T Consensus         9 ~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiE-DiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDa   87 (198)
T KOG3883|consen    9 VCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIE-DIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADA   87 (198)
T ss_pred             ceEEEEECCccccHHHHHHHHHhccCCCCCccccchh-hheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCce
Confidence            4699999999999999999998766533  3445544 3343333 33455557889999997665 6677889999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +++||+..+++||+.+..+-..|....+ ..+|+++++||+|+.+.+++..+.+..|+....+..+++++.+.-.+-+.|
T Consensus        88 fVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf  167 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPF  167 (198)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHH
Confidence            9999999999999998777677766543 679999999999999989999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 040481          171 EIVIREIYSNV  181 (222)
Q Consensus       171 ~~i~~~~~~~~  181 (222)
                      .+++..+....
T Consensus       168 ~~l~~rl~~pq  178 (198)
T KOG3883|consen  168 TYLASRLHQPQ  178 (198)
T ss_pred             HHHHHhccCCc
Confidence            99988776443

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=1e-20  Score=158.13  Aligned_cols=159  Identities=18%  Similarity=0.128  Sum_probs=116.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----hhhh---HHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----FRAV---TSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~---~~~~~~~~d   90 (222)
                      .|+++|.|+||||||+++|++........+.++.......+.+.+ ...+.+||+||...    ...+   +...+.+++
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~PGliega~~~~gLg~~fLrhier~~  238 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDD-GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTR  238 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeC-CceEEEEECCCCcccccccchHHHHHHHHHhhCC
Confidence            899999999999999999998764333333334444444444431 34578999999632    1122   233456799


Q ss_pred             EEEEEEECCCh---hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           91 GALIVYDITRR---TTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        91 ~vi~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      ++|+|+|+++.   .+++....|..++..+..  ..+|++||+||+|+.+    ..+....+....+.+++++||+++.|
T Consensus       239 llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~----~~e~l~~l~~~l~~~i~~iSA~tgeG  314 (424)
T PRK12297        239 VIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE----AEENLEEFKEKLGPKVFPISALTGQG  314 (424)
T ss_pred             EEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC----CHHHHHHHHHHhCCcEEEEeCCCCCC
Confidence            99999999864   677888888888877654  4689999999999843    13345556666678899999999999


Q ss_pred             HHHHHHHHHHHHHHHh
Q 040481          166 VKSAFEIVIREIYSNV  181 (222)
Q Consensus       166 i~~~~~~i~~~~~~~~  181 (222)
                      ++++++++.+.+.+..
T Consensus       315 I~eL~~~L~~~l~~~~  330 (424)
T PRK12297        315 LDELLYAVAELLEETP  330 (424)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999988776543

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.87  E-value=3e-21  Score=142.25  Aligned_cols=143  Identities=17%  Similarity=0.212  Sum_probs=100.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc----hhhhhHHHhhcCCCEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE----RFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~~~~~d~vi   93 (222)
                      +|+++|.+++|||||+++|.+...  ...++       ..+.+...    .+||+||..    .+.......+..+|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~--~~~~~-------~~v~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYT--LARKT-------QAVEFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCc--cCccc-------eEEEECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            799999999999999999876431  11122       12222222    279999962    22222233478999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC--eEEEEccCCCCCHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL--FFMETSALDSTNVKSAFE  171 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|+++..++  +..|+..+    ....|+++++||.|+.+   ...+...+++...+.  +++++||++|.|++++|+
T Consensus        70 ~v~d~~~~~s~--~~~~~~~~----~~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~  140 (158)
T PRK15467         70 YVHGANDPESR--LPAGLLDI----GVSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVD  140 (158)
T ss_pred             EEEeCCCcccc--cCHHHHhc----cCCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHH
Confidence            99999988765  23344433    13568999999999864   234556677777764  899999999999999999


Q ss_pred             HHHHHHHHHhh
Q 040481          172 IVIREIYSNVS  182 (222)
Q Consensus       172 ~i~~~~~~~~~  182 (222)
                      ++.+.+.+...
T Consensus       141 ~l~~~~~~~~~  151 (158)
T PRK15467        141 YLASLTKQEEA  151 (158)
T ss_pred             HHHHhchhhhc
Confidence            88886655443

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.87  E-value=8.2e-21  Score=160.38  Aligned_cols=155  Identities=21%  Similarity=0.239  Sum_probs=116.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh--------HH
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV--------TS   83 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~   83 (222)
                      ....++|+++|++|||||||+|+|++.... ....+.++.++....+.+++  ..+.+|||||...+...        ..
T Consensus       200 ~~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~  277 (442)
T TIGR00450       200 LDDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSF  277 (442)
T ss_pred             hhcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHH
Confidence            345589999999999999999999987542 23335556666666676765  44679999997554321        34


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      .+++.+|++|+|||++++.+++..  |+..+..   .+.|+++|+||+|+...      ....++..++.+++++||++ 
T Consensus       278 ~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-  345 (442)
T TIGR00450       278 KAIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-  345 (442)
T ss_pred             HHHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-
Confidence            578999999999999998887664  6665533   35799999999999643      12345666778899999998 


Q ss_pred             CCHHHHHHHHHHHHHHHh
Q 040481          164 TNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~~~  181 (222)
                      .||+++|+.+.+.+.+..
T Consensus       346 ~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       346 LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             CCHHHHHHHHHHHHHHHh
Confidence            699999999988776554

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.87  E-value=2.3e-21  Score=147.42  Aligned_cols=158  Identities=15%  Similarity=0.101  Sum_probs=102.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc----CCC---CCCCccceeEEEEEEEEC------------CeEEEEEEEeCCCcch
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE----FNP---HSKATIGVEFQTQSMEID------------GKEVKAQIWDTAGQER   77 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~----~~~---~~~~~~~~~~~~~~~~~~------------~~~~~~~i~D~~G~~~   77 (222)
                      ++|+++|++++|||||+++|+...    +..   +..+.++.+.....+.+.            +..+.+.+||+||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            589999999999999999998731    111   112222333333333332            3367889999999876


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHH-HH-----
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV--STEEGKSL-AE-----  149 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~-~~-----  149 (222)
                      +..........+|++++|+|+.++........+. ....   .+.|+++|+||+|+......  ..++..+. ..     
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~-~~~~---~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  156 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV-IGEI---LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKT  156 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH-HHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            6444445567789999999998865433332222 1111   24699999999998632221  11222221 11     


Q ss_pred             -HcCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          150 -AEGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       150 -~~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                       ..+++++++||++|.|++++++++.+++.
T Consensus       157 ~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         157 RFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence             23678999999999999999998887654

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

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.87  E-value=1.3e-21  Score=136.44  Aligned_cols=158  Identities=22%  Similarity=0.354  Sum_probs=124.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+.+.++|-.++|||||++.+..+.+...-.|+.|.....    ++...+.+.+||.||+..+..+|..|++.+++++||
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmrk----~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMRK----VTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeEE----eccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            4789999999999999999999888877777887654432    445567788999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHH-HHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLD-ELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~-~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      +|+.+++.++.....+. .+....-.++|++|+|||.|+++  .+......+-.     ....+-+|.+|+++..||+.+
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~--AL~~~~li~rmgL~sitdREvcC~siScke~~Nid~~  173 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPG--ALSKIALIERMGLSSITDREVCCFSISCKEKVNIDIT  173 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcc--cccHHHHHHHhCccccccceEEEEEEEEcCCccHHHH
Confidence            99999988877755444 44444458899999999999874  23333222111     122345899999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          170 FEIVIREIYS  179 (222)
Q Consensus       170 ~~~i~~~~~~  179 (222)
                      .+|++++--.
T Consensus       174 ~~Wli~hsk~  183 (186)
T KOG0075|consen  174 LDWLIEHSKS  183 (186)
T ss_pred             HHHHHHHhhh
Confidence            9999987543

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.87  E-value=6.7e-21  Score=165.50  Aligned_cols=156  Identities=16%  Similarity=0.178  Sum_probs=111.7

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ...+.++|+++|+.++|||||+++|.+..+.....+.++.++....+.+++. ..+.||||||++.|..++...+..+|+
T Consensus        83 ~~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDi  161 (587)
T TIGR00487        83 LVERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDI  161 (587)
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCE
Confidence            3456689999999999999999999988776555444444444444444332 267899999999999988888999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-------c--CCeEEEEccCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-------E--GLFFMETSALD  162 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-------~--~~~~~~~sa~~  162 (222)
                      +|+|||++++..-..... +.   .....++|+++++||+|+...   ..+........       +  ..+++++||++
T Consensus       162 aILVVda~dgv~~qT~e~-i~---~~~~~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAkt  234 (587)
T TIGR00487       162 VVLVVAADDGVMPQTIEA-IS---HAKAANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALT  234 (587)
T ss_pred             EEEEEECCCCCCHhHHHH-HH---HHHHcCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCC
Confidence            999999987532111111 22   222356899999999998642   22333333222       2  25799999999


Q ss_pred             CCCHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIR  175 (222)
Q Consensus       163 ~~~i~~~~~~i~~  175 (222)
                      |.|++++|+++..
T Consensus       235 GeGI~eLl~~I~~  247 (587)
T TIGR00487       235 GDGIDELLDMILL  247 (587)
T ss_pred             CCChHHHHHhhhh
Confidence            9999999998864

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.87  E-value=5.9e-21  Score=156.68  Aligned_cols=156  Identities=22%  Similarity=0.303  Sum_probs=107.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC-CCccceeEEEEEEEECCeEEEEEEEeCCCcchh-hhh-------HHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-RAV-------TSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~~-------~~~   84 (222)
                      ...++|+++|.+|||||||+++|.+..+.... .+.++.+.....+..++  .++.+|||||.... ...       ...
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~~  127 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAWS  127 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHHH
Confidence            45679999999999999999999988764322 22223333334444444  46789999997432 111       123


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEEccC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG--LFFMETSAL  161 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~  161 (222)
                      .+..+|++++|+|..+.  +.... .|+..+...   +.|.++|+||+|+.+.   ...++.+++...+  ..++++||+
T Consensus       128 ~l~~aDvil~VvD~~~s--~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAk  199 (339)
T PRK15494        128 SLHSADLVLLIIDSLKS--FDDITHNILDKLRSL---NIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISAL  199 (339)
T ss_pred             HhhhCCEEEEEEECCCC--CCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEecc
Confidence            47899999999997664  44443 355555432   3577899999998642   2344555555443  679999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~~~  179 (222)
                      +|.|++++|++|...+.+
T Consensus       200 tg~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        200 SGKNIDGLLEYITSKAKI  217 (339)
T ss_pred             CccCHHHHHHHHHHhCCC
Confidence            999999999999886543

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.87  E-value=1.1e-20  Score=164.71  Aligned_cols=157  Identities=22%  Similarity=0.271  Sum_probs=116.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcC-------CCCCCC------ccceeEEEEEEEE-----CCeEEEEEEEeCCCcch
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEF-------NPHSKA------TIGVEFQTQSMEI-----DGKEVKAQIWDTAGQER   77 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~-------~~~~~~------~~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~   77 (222)
                      .-+++++|+.++|||||+++|+....       ...+..      ..+.++....+.+     ++..+.+++|||||+..
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            34899999999999999999987521       111111      1244444333322     45678899999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC---e
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL---F  154 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~  154 (222)
                      |...+..+++.+|++|+|||++++.+......|...+.    .++|+++|+||+|+....  ..+...++...+++   .
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~  156 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASE  156 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcce
Confidence            99889999999999999999999877776666655442    357999999999986422  12233455555555   4


Q ss_pred             EEEEccCCCCCHHHHHHHHHHHHH
Q 040481          155 FMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       155 ~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ++++||++|.|++++|+.|.+.+.
T Consensus       157 vi~vSAktG~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       157 AILASAKTGIGIEEILEAIVKRVP  180 (595)
T ss_pred             EEEeeccCCCCHHHHHHHHHHhCC
Confidence            899999999999999999887654

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.87  E-value=5.6e-21  Score=140.08  Aligned_cols=146  Identities=19%  Similarity=0.120  Sum_probs=100.7

Q ss_pred             EEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh--------hHHHhhcCCC
Q 040481           20 VIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA--------VTSAYYRGAV   90 (222)
Q Consensus        20 ~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d   90 (222)
                      +++|.+|+|||||+++|.+.... ....+.++.+........++  ..+.+|||||...+..        .+...++.+|
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d   78 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEAD   78 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCC
Confidence            47999999999999999987532 12223333444444444444  5678999999877433        3345678899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~  169 (222)
                      ++++|+|+.++.+.... .+...+..   .+.|+++|+||+|+.+....     .......+. .++++|++++.|++++
T Consensus        79 ~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          79 VILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             EEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHH
Confidence            99999999876544332 22233322   34799999999998753222     222334555 6899999999999999


Q ss_pred             HHHHHHH
Q 040481          170 FEIVIRE  176 (222)
Q Consensus       170 ~~~i~~~  176 (222)
                      |++++++
T Consensus       150 ~~~l~~~  156 (157)
T cd01894         150 LDAILEL  156 (157)
T ss_pred             HHHHHhh
Confidence            9998875

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.87  E-value=1.3e-20  Score=158.36  Aligned_cols=158  Identities=16%  Similarity=0.136  Sum_probs=112.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--hhhhH------HHhhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--FRAVT------SAYYRG   88 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~------~~~~~~   88 (222)
                      ++|+++|.++||||||+|+|++........+..+.+.....+.+.+. ..+.+|||+|...  ....+      ...+..
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~  276 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQ  276 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhc
Confidence            68999999999999999999987654434444455555555555542 2467999999732  12222      234688


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEEccCCCCCHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVK  167 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~  167 (222)
                      +|++|+|+|++++.+++.+..|...+......++|+++|+||+|+.+...  . ...  ....+.+ ++.+||++|.|++
T Consensus       277 ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~--~-~~~--~~~~~~~~~v~ISAktG~GId  351 (426)
T PRK11058        277 ATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE--P-RID--RDEENKPIRVWLSAQTGAGIP  351 (426)
T ss_pred             CCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh--H-HHH--HHhcCCCceEEEeCCCCCCHH
Confidence            99999999999998888776665555554445689999999999864211  1 111  1123444 5889999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYSN  180 (222)
Q Consensus       168 ~~~~~i~~~~~~~  180 (222)
                      ++++++.+.+...
T Consensus       352 eL~e~I~~~l~~~  364 (426)
T PRK11058        352 LLFQALTERLSGE  364 (426)
T ss_pred             HHHHHHHHHhhhc
Confidence            9999999887543

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.86  E-value=1.3e-20  Score=160.04  Aligned_cols=167  Identities=28%  Similarity=0.223  Sum_probs=111.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh-----------h
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA-----------V   81 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----------~   81 (222)
                      ...++|+++|.+++|||||+++|++..... ...+.++.+.....+..++.  .+.+|||||......           .
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~~~  247 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSVLR  247 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHHHH
Confidence            456899999999999999999999876432 22333344443344444543  577999999643321           1


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH-HHHHH----cCCeEE
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK-SLAEA----EGLFFM  156 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~  156 (222)
                      ....++.+|++|+|+|+.++.+..... ++..+..   .+.|+++|+||+|+.+. ....+... .....    .+++++
T Consensus       248 ~~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~vi  322 (429)
T TIGR03594       248 TLKAIERADVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLVKD-EKTREEFKKELRRKLPFLDFAPIV  322 (429)
T ss_pred             HHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccCCC-HHHHHHHHHHHHHhcccCCCCceE
Confidence            234688999999999999987765543 3333332   45799999999999721 11111221 22222    257899


Q ss_pred             EEccCCCCCHHHHHHHHHHHHHHHhhhhccCC
Q 040481          157 ETSALDSTNVKSAFEIVIREIYSNVSRKVLNS  188 (222)
Q Consensus       157 ~~sa~~~~~i~~~~~~i~~~~~~~~~~~~~~s  188 (222)
                      ++||++|.|++++|+++... ++...++.+++
T Consensus       323 ~~SA~~g~~v~~l~~~i~~~-~~~~~~~i~t~  353 (429)
T TIGR03594       323 FISALTGQGVDKLLDAIDEV-YENANRRISTS  353 (429)
T ss_pred             EEeCCCCCCHHHHHHHHHHH-HHHhcCcCCHH
Confidence            99999999999999988874 44555544443

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.86  E-value=1.4e-20  Score=159.26  Aligned_cols=162  Identities=16%  Similarity=0.087  Sum_probs=113.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----h---hhhHHHhhcCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----F---RAVTSAYYRGA   89 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~---~~~~~~~~~~~   89 (222)
                      ..|+|+|.|+||||||+++|++........+.++.......+.+.+  ..+.+||+||...    .   .......+..+
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhiera  237 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHIERC  237 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHHHhc
Confidence            4789999999999999999998654433334445555555555554  4678999999531    1   11123356889


Q ss_pred             CEEEEEEECCCh----hhHHHHHHHHHHHHhcC-----------CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe
Q 040481           90 VGALIVYDITRR----TTFDSISRWLDELKTHS-----------DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF  154 (222)
Q Consensus        90 d~vi~v~d~~~~----~s~~~~~~~~~~i~~~~-----------~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  154 (222)
                      |++|+|+|+++.    ..+..+..|..++..+.           ....|++||+||+|+.+...+ .+.........+++
T Consensus       238 dvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el-~e~l~~~l~~~g~~  316 (500)
T PRK12296        238 AVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAREL-AEFVRPELEARGWP  316 (500)
T ss_pred             CEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHH-HHHHHHHHHHcCCe
Confidence            999999999753    34555555555554443           145899999999999753322 22233334455789


Q ss_pred             EEEEccCCCCCHHHHHHHHHHHHHHHh
Q 040481          155 FMETSALDSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       155 ~~~~sa~~~~~i~~~~~~i~~~~~~~~  181 (222)
                      ++++||+++.|+++++.+|.+.+...+
T Consensus       317 Vf~ISA~tgeGLdEL~~~L~ell~~~r  343 (500)
T PRK12296        317 VFEVSAASREGLRELSFALAELVEEAR  343 (500)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence            999999999999999999998776654

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.86  E-value=1.1e-20  Score=160.34  Aligned_cols=149  Identities=22%  Similarity=0.215  Sum_probs=111.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh--------HHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV--------TSAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   85 (222)
                      ..++|+++|.+++|||||+|+|++.... ....+.++.++....+.+++  ..+.+|||||...+...        ....
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREA  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            3479999999999999999999987642 23344445566666666665  45789999997654321        2346


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      +..+|++++|||++++.+++....|..      ..+.|+++|+||+|+.+.....        ...+.+++++||++|.|
T Consensus       292 ~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~G  357 (449)
T PRK05291        292 IEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEG  357 (449)
T ss_pred             HHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCC
Confidence            889999999999999888775544433      3457999999999996532221        34467799999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYS  179 (222)
Q Consensus       166 i~~~~~~i~~~~~~  179 (222)
                      ++++++++.+.+..
T Consensus       358 I~~L~~~L~~~l~~  371 (449)
T PRK05291        358 IDELREAIKELAFG  371 (449)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999887754

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.86  E-value=1e-20  Score=161.98  Aligned_cols=155  Identities=21%  Similarity=0.201  Sum_probs=109.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--------hhhhHHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--------FRAVTSAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~   85 (222)
                      ..++|+|+|.++||||||+++|++..... ...+..+.+.....+.+.+.  .+.+|||||.+.        +...+..+
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~  114 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGR--RFTVVDTGGWEPDAKGLQASVAEQAEVA  114 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCc--EEEEEeCCCcCCcchhHHHHHHHHHHHH
Confidence            34799999999999999999999876432 33444455555555555554  477999999652        33445567


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      ++.+|++|+|||++++.++.. ..+...+..   .++|+++|+||+|+....   .+....+....+ .++++||++|.|
T Consensus       115 ~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~~~g~~-~~~~iSA~~g~g  186 (472)
T PRK03003        115 MRTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALWSLGLG-EPHPVSALHGRG  186 (472)
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHHhcCCC-CeEEEEcCCCCC
Confidence            899999999999998866533 334444443   458999999999986421   122222222233 357999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYS  179 (222)
Q Consensus       166 i~~~~~~i~~~~~~  179 (222)
                      ++++|++++..+.+
T Consensus       187 i~eL~~~i~~~l~~  200 (472)
T PRK03003        187 VGDLLDAVLAALPE  200 (472)
T ss_pred             cHHHHHHHHhhccc
Confidence            99999999987754

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.86  E-value=8.7e-21  Score=145.42  Aligned_cols=159  Identities=21%  Similarity=0.190  Sum_probs=100.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC---CCCCCccceeEEEEEEEEC---------------------------C----
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN---PHSKATIGVEFQTQSMEID---------------------------G----   62 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~---------------------------~----   62 (222)
                      ++|+++|+.|+|||||+.+|.+....   .+.....+.........+.                           +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            47999999999999999999765221   1111111111111111100                           0    


Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--C
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV--S  140 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~--~  140 (222)
                      ....+.|||+||++.+...+...+..+|++++|+|+.++.........+..+...  ...|+++|+||+|+......  .
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~  158 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM--GLKHIIIVQNKIDLVKEEQALEN  158 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc--CCCcEEEEEEchhccCHHHHHHH
Confidence            1267889999999998888888888999999999998742111111222222222  12478999999999642221  1


Q ss_pred             HHHHHHHHHH---cCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          141 TEEGKSLAEA---EGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       141 ~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      .+.+.++...   .+++++++||++|+|++++|+.+.+.+
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            1233333332   267899999999999999999887654

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

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.86  E-value=3.1e-20  Score=128.60  Aligned_cols=155  Identities=21%  Similarity=0.417  Sum_probs=121.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      +++|+++|-.++||||++..|.-+. +....||+|  +.+..+.+.  .+.|++||.+|++..+..|.++|....++|||
T Consensus        17 E~~ilmlGLd~aGKTtiLyKLkl~~-~~~~ipTvG--FnvetVtyk--N~kfNvwdvGGqd~iRplWrhYy~gtqglIFV   91 (180)
T KOG0071|consen   17 EMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   91 (180)
T ss_pred             cceEEEEecccCCceehhhHHhcCC-Ccccccccc--eeEEEEEee--eeEEeeeeccCchhhhHHHHhhccCCceEEEE
Confidence            6899999999999999999987654 233445555  445555454  57788999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-----EGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~~~  169 (222)
                      +|..++.-++++...+-.+.... -...|++|.+||.|+++  ....+++..+...     ..+.+.+++|.+|.|+.+-
T Consensus        92 ~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~--A~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eg  169 (180)
T KOG0071|consen   92 VDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPD--AMKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEG  169 (180)
T ss_pred             EeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccc--ccCHHHHHHHhccccccCCccEeeccccccchhHHHH
Confidence            99999988888755444443333 36688888899999984  4556666555433     3456889999999999999


Q ss_pred             HHHHHHHH
Q 040481          170 FEIVIREI  177 (222)
Q Consensus       170 ~~~i~~~~  177 (222)
                      |.|+.+.+
T Consensus       170 lswlsnn~  177 (180)
T KOG0071|consen  170 LSWLSNNL  177 (180)
T ss_pred             HHHHHhhc
Confidence            99998764

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.85  E-value=5.3e-20  Score=153.03  Aligned_cols=161  Identities=20%  Similarity=0.129  Sum_probs=115.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hhhhHHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FRAVTSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   90 (222)
                      .|+|+|.|+||||||+|+|++........|.++.......+.+.+ ...+.++|+||...       ........+..+|
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~rad  239 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDD-ERSFVVADIPGLIEGASEGAGLGIRFLKHLERCR  239 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCC-CcEEEEEeCCCccccccchhhHHHHHHHHHHhCC
Confidence            789999999999999999998765434444445455555555542 23477999999643       1112234578999


Q ss_pred             EEEEEEECC---ChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEEccCCC
Q 040481           91 GALIVYDIT---RRTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG--LFFMETSALDS  163 (222)
Q Consensus        91 ~vi~v~d~~---~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~  163 (222)
                      ++++|+|++   ....++....|+..+.....  ...|+++|+||+|+.....+ .+....+....+  .+++++||+++
T Consensus       240 vlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg  318 (390)
T PRK12298        240 VLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASG  318 (390)
T ss_pred             EEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCC
Confidence            999999998   45667777888888776543  45799999999998653322 233444444443  46899999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIYSN  180 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~~  180 (222)
                      .|++++++.|.+.+.+.
T Consensus       319 ~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        319 LGVKELCWDLMTFIEEN  335 (390)
T ss_pred             cCHHHHHHHHHHHhhhC
Confidence            99999999998877553

>cd04163 Era Era subfamily

Probab=99.85  E-value=4.6e-20  Score=136.12  Aligned_cols=156  Identities=21%  Similarity=0.129  Sum_probs=103.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh--------hhHHHhhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR--------AVTSAYYR   87 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~   87 (222)
                      ..+|+++|++|+|||||++++++................ ....+......+.+||+||.....        ......+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNR-IRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceece-EEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHH
Confidence            578999999999999999999987653322211111111 112233334668899999965332        23345688


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNV  166 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i  166 (222)
                      .+|++++|+|+.++.+. ....+...+..   .+.|+++|+||+|+........+....+.... ..+++++|++++.|+
T Consensus        82 ~~d~i~~v~d~~~~~~~-~~~~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~  157 (168)
T cd04163          82 DVDLVLFVVDASEPIGE-GDEFILELLKK---SKTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENV  157 (168)
T ss_pred             hCCEEEEEEECCCccCc-hHHHHHHHHHH---hCCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCCh
Confidence            89999999999987221 11223333333   25799999999999743333333344444444 368999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          167 KSAFEIVIRE  176 (222)
Q Consensus       167 ~~~~~~i~~~  176 (222)
                      +++++.|.+.
T Consensus       158 ~~l~~~l~~~  167 (168)
T cd04163         158 DELLEEIVKY  167 (168)
T ss_pred             HHHHHHHHhh
Confidence            9999988764

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.85  E-value=3.2e-20  Score=163.66  Aligned_cols=157  Identities=20%  Similarity=0.197  Sum_probs=111.9

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccce--eEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGV--EFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ..+.+.|+++|+.++|||||+++|....+.....+.++.  ..+...+..++....+.||||||++.|..++..++..+|
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aD  320 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTD  320 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCC
Confidence            456689999999999999999999887665443333332  223333334445678999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH-------HHHcC--CeEEEEccC
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSL-------AEAEG--LFFMETSAL  161 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-------~~~~~--~~~~~~sa~  161 (222)
                      ++|+|||++++..-.....| ..+   ...++|+++++||+|+....   .+.+...       ...++  ++++++||+
T Consensus       321 iaILVVDA~dGv~~QT~E~I-~~~---k~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAk  393 (742)
T CHL00189        321 IAILIIAADDGVKPQTIEAI-NYI---QAANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISAS  393 (742)
T ss_pred             EEEEEEECcCCCChhhHHHH-HHH---HhcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECC
Confidence            99999999885332222222 222   23568999999999986422   2222111       22233  689999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIRE  176 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~  176 (222)
                      +|.|++++|+.++..
T Consensus       394 tG~GIdeLle~I~~l  408 (742)
T CHL00189        394 QGTNIDKLLETILLL  408 (742)
T ss_pred             CCCCHHHHHHhhhhh
Confidence            999999999988765

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.85  E-value=5.4e-20  Score=163.51  Aligned_cols=156  Identities=18%  Similarity=0.206  Sum_probs=111.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ...+.+.|+|+|+.++|||||+++|....+.......++.+.....+.+++  ..+.||||||++.|..++...+..+|+
T Consensus       286 ~~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDi  363 (787)
T PRK05306        286 LVPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDI  363 (787)
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCE
Confidence            456778999999999999999999988776544444333333333444444  568899999999999999888999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH-------HHHHcC--CeEEEEccCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKS-------LAEAEG--LFFMETSALD  162 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~-------~~~~~~--~~~~~~sa~~  162 (222)
                      +|+|||++++..-    ++...+......++|+||++||+|+....   .+.+..       ++..++  ++++++||++
T Consensus       364 aILVVdAddGv~~----qT~e~i~~a~~~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~vpvSAkt  436 (787)
T PRK05306        364 VVLVVAADDGVMP----QTIEAINHAKAAGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIFVPVSAKT  436 (787)
T ss_pred             EEEEEECCCCCCH----hHHHHHHHHHhcCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceEEEEeCCC
Confidence            9999999885321    11112222223568999999999996421   111111       122333  7899999999


Q ss_pred             CCCHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIRE  176 (222)
Q Consensus       163 ~~~i~~~~~~i~~~  176 (222)
                      |.|++++|++|...
T Consensus       437 G~GI~eLle~I~~~  450 (787)
T PRK05306        437 GEGIDELLEAILLQ  450 (787)
T ss_pred             CCCchHHHHhhhhh
Confidence            99999999988753

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.85  E-value=2.9e-20  Score=162.07  Aligned_cols=153  Identities=17%  Similarity=0.163  Sum_probs=113.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc---CCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE---FNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      +.|+++|++++|||||+++|++..   +..++.++++.++....+..++  ..+.+||+||++.|.......+..+|++|
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            468999999999999999999743   3344455556666655565555  67889999999999888888899999999


Q ss_pred             EEEECCCh---hhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC--CHHHHHHHHHHc----CCeEEEEccCCC
Q 040481           94 IVYDITRR---TTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNV--STEEGKSLAEAE----GLFFMETSALDS  163 (222)
Q Consensus        94 ~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~~~~sa~~~  163 (222)
                      +|+|++++   ++++.+    ..+..   .++| ++||+||+|+.+...+  ..+++.++....    +++++++||++|
T Consensus        79 LVVDa~~G~~~qT~ehl----~il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG  151 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHL----AVLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTG  151 (581)
T ss_pred             EEEECCCCCcHHHHHHH----HHHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCC
Confidence            99999984   443332    22322   3467 8999999999754332  123444555443    578999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIY  178 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~  178 (222)
                      .|+++++..+...+.
T Consensus       152 ~GI~eL~~~L~~l~~  166 (581)
T TIGR00475       152 QGIGELKKELKNLLE  166 (581)
T ss_pred             CCchhHHHHHHHHHH
Confidence            999999998776544

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.85  E-value=4.2e-20  Score=140.71  Aligned_cols=160  Identities=16%  Similarity=0.170  Sum_probs=104.4

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc----------chhhhh
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ----------ERFRAV   81 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~   81 (222)
                      +.+..++|+++|++|+|||||+++|.+..+.....++.+.+........   ...+.+||+||.          +.+...
T Consensus        20 ~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~   96 (196)
T PRK00454         20 PPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKL   96 (196)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHH
Confidence            4456689999999999999999999987644444444444433333222   256889999994          233334


Q ss_pred             HHHhhcCC---CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHHcCCeEE
Q 040481           82 TSAYYRGA---VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEGKSLAEAEGLFFM  156 (222)
Q Consensus        82 ~~~~~~~~---d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~  156 (222)
                      ...++..+   +++++|+|..++.+.... .+...+.   ..++|+++++||.|+.......  .+.+.........+++
T Consensus        97 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~---~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~  172 (196)
T PRK00454         97 IEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLK---EYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVI  172 (196)
T ss_pred             HHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHH---HcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceE
Confidence            44455544   678889998876543221 1122222   2457899999999986432211  1223334444467899


Q ss_pred             EEccCCCCCHHHHHHHHHHHHH
Q 040481          157 ETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       157 ~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ++||+++.|++++++.|...+.
T Consensus       173 ~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        173 LFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             EEEcCCCCCHHHHHHHHHHHhc
Confidence            9999999999999998876553

>PRK00089 era GTPase Era; Reviewed

Probab=99.85  E-value=5.6e-20  Score=148.59  Aligned_cols=158  Identities=20%  Similarity=0.172  Sum_probs=104.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh--------hhhHHHhhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF--------RAVTSAYYR   87 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~   87 (222)
                      .-.|+++|++|||||||+|+|++...........++......+... ....+.+|||||....        .......+.
T Consensus         5 ~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~-~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~   83 (292)
T PRK00089          5 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTE-DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLK   83 (292)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEc-CCceEEEEECCCCCCchhHHHHHHHHHHHHHHh
Confidence            3569999999999999999999987644332222222222222222 2367889999996432        223344678


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNV  166 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i  166 (222)
                      .+|++++|+|+++..+- .....+..+.   ..+.|+++|+||+|+.............+.... ..+++++||+++.|+
T Consensus        84 ~~D~il~vvd~~~~~~~-~~~~i~~~l~---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv  159 (292)
T PRK00089         84 DVDLVLFVVDADEKIGP-GDEFILEKLK---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNV  159 (292)
T ss_pred             cCCEEEEEEeCCCCCCh-hHHHHHHHHh---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCH
Confidence            89999999999884321 1122223333   235799999999999743222333444444433 367999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIY  178 (222)
Q Consensus       167 ~~~~~~i~~~~~  178 (222)
                      +++++++.+.+.
T Consensus       160 ~~L~~~L~~~l~  171 (292)
T PRK00089        160 DELLDVIAKYLP  171 (292)
T ss_pred             HHHHHHHHHhCC
Confidence            999999888764

>cd01895 EngA2 EngA2 subfamily

Probab=99.85  E-value=1.3e-19  Score=134.85  Aligned_cols=154  Identities=27%  Similarity=0.222  Sum_probs=102.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh----------h-hhHH
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF----------R-AVTS   83 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~-~~~~   83 (222)
                      .++|+++|++|+|||||+++|.+..... ...+..+.......+..++.  .+.+||+||....          . ....
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGK--KYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCe--eEEEEECCCCccccchhccHHHHHHHHHH
Confidence            4799999999999999999999876432 22233333333334444543  3679999996432          1 1123


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH-HHHHHHHc----CCeEEEE
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEE-GKSLAEAE----GLFFMET  158 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~-~~~~~~~~----~~~~~~~  158 (222)
                      ..+..+|++++|+|+.++.+.... .++..+..   .+.|+++++||+|+.+......+. ...+....    ..+++++
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFI  155 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEE
Confidence            456789999999999998775443 23333322   347999999999987543222222 22222333    3679999


Q ss_pred             ccCCCCCHHHHHHHHHH
Q 040481          159 SALDSTNVKSAFEIVIR  175 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~  175 (222)
                      ||+++.|+.++++.+.+
T Consensus       156 Sa~~~~~i~~~~~~l~~  172 (174)
T cd01895         156 SALTGQGVDKLFDAIDE  172 (174)
T ss_pred             eccCCCCHHHHHHHHHH
Confidence            99999999999997765

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.84  E-value=3.6e-20  Score=139.31  Aligned_cols=149  Identities=17%  Similarity=0.199  Sum_probs=97.8

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc----------hhhhh
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE----------RFRAV   81 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~   81 (222)
                      ++...++|+|+|++|+|||||+++|.+..+.....++.+.+.....+..++   .+.+||+||..          .+...
T Consensus        14 ~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~   90 (179)
T TIGR03598        14 PPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKL   90 (179)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHH
Confidence            456778999999999999999999998764333333433333333333332   47899999942          23333


Q ss_pred             HHHhhc---CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHcC--Ce
Q 040481           82 TSAYYR---GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTEEGKSLAEAEG--LF  154 (222)
Q Consensus        82 ~~~~~~---~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~--~~  154 (222)
                      ...+++   .++++++|+|+..+.+.... .++..+..   .++|+++++||+|+.+...  ...++++......+  +.
T Consensus        91 ~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~  166 (179)
T TIGR03598        91 IEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPS  166 (179)
T ss_pred             HHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCc
Confidence            444554   35799999999886554443 23333332   4579999999999864221  12233444444443  47


Q ss_pred             EEEEccCCCCCHH
Q 040481          155 FMETSALDSTNVK  167 (222)
Q Consensus       155 ~~~~sa~~~~~i~  167 (222)
                      ++++||++|+|++
T Consensus       167 v~~~Sa~~g~gi~  179 (179)
T TIGR03598       167 VQLFSSLKKTGID  179 (179)
T ss_pred             eEEEECCCCCCCC
Confidence            9999999999973

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.84  E-value=1.1e-20  Score=137.42  Aligned_cols=163  Identities=28%  Similarity=0.532  Sum_probs=142.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++++++|+.|.||||++++++.+++...+.++.+.+.......-+...+.+..||+.|++.+......+|-...+.|
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAi   87 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAI   87 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeE
Confidence            46789999999999999999999999999999999998888777655555689999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      ++||+..+.++.++..|...+.+.+.+ +|++++|||.|..+..  .......+....++.|+++||+.+-|....|.|+
T Consensus        88 imFdVtsr~t~~n~~rwhrd~~rv~~N-iPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~L  164 (216)
T KOG0096|consen   88 IMFDVTSRFTYKNVPRWHRDLVRVREN-IPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLWL  164 (216)
T ss_pred             EEeeeeehhhhhcchHHHHHHHHHhcC-CCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccchHHH
Confidence            999999999999999999999888866 9999999999986432  1222334667778999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      .+++.-
T Consensus       165 arKl~G  170 (216)
T KOG0096|consen  165 ARKLTG  170 (216)
T ss_pred             hhhhcC
Confidence            987653

>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=99.84  E-value=1.2e-20  Score=143.12  Aligned_cols=159  Identities=22%  Similarity=0.217  Sum_probs=107.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC------------------CCccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHS------------------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      ..++|+++|+.++|||||+.+|+........                  ....+................+.++|+||+.
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE   81 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence            4579999999999999999999865422111                  1112233333333312445678899999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHc---
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTEEGKSLAEAE---  151 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~---  151 (222)
                      .|.......+..+|++|+|+|+.++.... ..+.+..+..   .++|+++|+||+|+...+.  ...+....+.+..   
T Consensus        82 ~f~~~~~~~~~~~D~ailvVda~~g~~~~-~~~~l~~~~~---~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~  157 (188)
T PF00009_consen   82 DFIKEMIRGLRQADIAILVVDANDGIQPQ-TEEHLKILRE---LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGEN  157 (188)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEETTTBSTHH-HHHHHHHHHH---TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTST
T ss_pred             ceeecccceecccccceeeeecccccccc-cccccccccc---cccceEEeeeeccchhhhHHHHHHHHHHHhccccccC
Confidence            99888888899999999999999875422 2333333333   4578999999999872111  1111111332222   


Q ss_pred             ---CCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          152 ---GLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       152 ---~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                         .++++++||.+|.|++++++.+.+.+
T Consensus       158 ~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  158 GEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             TTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             ccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence               36799999999999999999887754

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 ....

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.84  E-value=1.7e-19  Score=153.48  Aligned_cols=146  Identities=21%  Similarity=0.172  Sum_probs=105.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--------hhhhHHHhhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--------FRAVTSAYYR   87 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~   87 (222)
                      ++|+++|.+|||||||+++|.+.... ....+..+.+.....+.+++  ..+.+|||||...        +......++.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            58999999999999999999987642 22234445555566666665  6688999999876        2333456788


Q ss_pred             CCCEEEEEEECCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEEccCCCC
Q 040481           88 GAVGALIVYDITRRTTFD--SISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDST  164 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~  164 (222)
                      .+|++|+|+|+.++.+..  .+..|+..      .+.|+++|+||+|+.+.    .+...++ ..++.. ++++||.+|.
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l~~------~~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~  148 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKILRK------SNKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGR  148 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCC
Confidence            999999999998865432  22334332      25799999999997541    1222333 344553 8999999999


Q ss_pred             CHHHHHHHHHH
Q 040481          165 NVKSAFEIVIR  175 (222)
Q Consensus       165 ~i~~~~~~i~~  175 (222)
                      |+.++|+.+..
T Consensus       149 gv~~l~~~I~~  159 (435)
T PRK00093        149 GIGDLLDAILE  159 (435)
T ss_pred             CHHHHHHHHHh
Confidence            99999998877

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.83  E-value=1.7e-19  Score=157.50  Aligned_cols=146  Identities=18%  Similarity=0.201  Sum_probs=108.9

Q ss_pred             cCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh------HHHhh--cCCCEEEE
Q 040481           23 GDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV------TSAYY--RGAVGALI   94 (222)
Q Consensus        23 G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~vi~   94 (222)
                      |++|||||||+|+|.+........+..+.+.....+.+++.  .+++||+||...+...      ...++  ..+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~~--~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGE--DIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECCe--EEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            89999999999999988765555566666666666666654  4689999998766432      33333  47899999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |+|+++.+.   ...+...+   .+.++|+++|+||+|+.+...+. .+.+.+.+..+++++++||++|.|++++++.+.
T Consensus        79 VvDat~ler---~l~l~~ql---~~~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~  151 (591)
T TIGR00437        79 VVDASNLER---NLYLTLQL---LELGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             EecCCcchh---hHHHHHHH---HhcCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHH
Confidence            999987532   12222222   23468999999999997544444 346778888999999999999999999999988


Q ss_pred             HHH
Q 040481          175 REI  177 (222)
Q Consensus       175 ~~~  177 (222)
                      +.+
T Consensus       152 ~~~  154 (591)
T TIGR00437       152 KAI  154 (591)
T ss_pred             HHh
Confidence            753

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>COG1159 Era GTPase [General function prediction only]

Probab=99.83  E-value=2.1e-19  Score=140.41  Aligned_cols=160  Identities=21%  Similarity=0.143  Sum_probs=110.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--------hhhhHHHhh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--------FRAVTSAYY   86 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~   86 (222)
                      +.--|+|+|.|+||||||+|+|.+....-.+....++.-.+..+.-. ...++.|+||||...        ........+
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~-~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl   83 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTT-DNAQIIFVDTPGIHKPKHALGELMNKAARSAL   83 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEc-CCceEEEEeCCCCCCcchHHHHHHHHHHHHHh
Confidence            34579999999999999999999999876655444444444444333 367888999999432        223344567


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEEccCCCCC
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTN  165 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~  165 (222)
                      ..+|+++||+|+++...- .....++.+..   ...|+++++||.|..............+.... ...++++||++|.|
T Consensus        84 ~dvDlilfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n  159 (298)
T COG1159          84 KDVDLILFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDN  159 (298)
T ss_pred             ccCcEEEEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCC
Confidence            899999999999986431 11223333433   45799999999998754442222233222222 34699999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYS  179 (222)
Q Consensus       166 i~~~~~~i~~~~~~  179 (222)
                      ++.+.+.+...+.+
T Consensus       160 ~~~L~~~i~~~Lpe  173 (298)
T COG1159         160 VDTLLEIIKEYLPE  173 (298)
T ss_pred             HHHHHHHHHHhCCC
Confidence            99999877776543

>cd00880 Era_like Era (E

Probab=99.82  E-value=1.8e-19  Score=131.69  Aligned_cols=151  Identities=21%  Similarity=0.161  Sum_probs=103.3

Q ss_pred             EEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh-------hhHHHhhcCCCEE
Q 040481           21 IIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-------AVTSAYYRGAVGA   92 (222)
Q Consensus        21 i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~v   92 (222)
                      ++|++|+|||||+++|.+.... ....+..+............ ...+.+||+||.....       .....++..+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            5899999999999999987654 22233323233333332221 4567899999976543       2444578999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH---HHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTE---EGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~---~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|+.+........ +.....   ....|+++|+||.|+.........   .........+++++++|+.++.|+.++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l  155 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDEL  155 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHH
Confidence            9999999987755544 333332   245799999999998754332221   122334445788999999999999999


Q ss_pred             HHHHHHH
Q 040481          170 FEIVIRE  176 (222)
Q Consensus       170 ~~~i~~~  176 (222)
                      ++++.+.
T Consensus       156 ~~~l~~~  162 (163)
T cd00880         156 REALIEA  162 (163)
T ss_pred             HHHHHhh
Confidence            9988764

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

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.82  E-value=6.2e-20  Score=131.66  Aligned_cols=160  Identities=23%  Similarity=0.366  Sum_probs=120.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcC------C-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEF------N-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR   87 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   87 (222)
                      ..+.|+|+|..++|||||+.++.....      + ....++.+  ....++...+  -.+.+||.+|++...++|..+|.
T Consensus        16 e~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvg--Lnig~i~v~~--~~l~fwdlgGQe~lrSlw~~yY~   91 (197)
T KOG0076|consen   16 EDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVG--LNIGTIEVCN--APLSFWDLGGQESLRSLWKKYYW   91 (197)
T ss_pred             hhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccc--eeecceeecc--ceeEEEEcCChHHHHHHHHHHHH
Confidence            346899999999999999998854321      1 11223333  4444444453  45779999999999999999999


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH------HcCCeEEEEcc
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKT-HSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE------AEGLFFMETSA  160 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~------~~~~~~~~~sa  160 (222)
                      .++++|++||+++++-|+....-++.+.. ..-.++|+++.+||.|+.+.  ....+++....      ...+++.++||
T Consensus        92 ~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~--~~~~El~~~~~~~e~~~~rd~~~~pvSa  169 (197)
T KOG0076|consen   92 LAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNA--MEAAELDGVFGLAELIPRRDNPFQPVSA  169 (197)
T ss_pred             HhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhh--hhHHHHHHHhhhhhhcCCccCccccchh
Confidence            99999999999999988887665555443 33478999999999999753  33333333222      23567999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHH
Q 040481          161 LDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~~~~~  180 (222)
                      .+|+||++..+|+...+.++
T Consensus       170 l~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  170 LTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhcccHHHHHHHHHHHHhhc
Confidence            99999999999999988766

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.82  E-value=2.4e-19  Score=152.48  Aligned_cols=166  Identities=27%  Similarity=0.218  Sum_probs=108.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh----------hh-h
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF----------RA-V   81 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~~-~   81 (222)
                      ...++|+++|.+++|||||+++|++.... ....+.++.+.....+..++  ..+.+|||||....          .. .
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~~  248 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVIR  248 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHHH
Confidence            34699999999999999999999986532 22233333333333343444  44679999995321          11 1


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH----HHcCCeEEE
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLA----EAEGLFFME  157 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~  157 (222)
                      ....++.+|++|+|+|+.++.+..... +...+..   .+.|+++|+||+|+.+... ..+......    ....+++++
T Consensus       249 ~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~-~~~~~~~~~~~l~~~~~~~i~~  323 (435)
T PRK00093        249 TLKAIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKT-MEEFKKELRRRLPFLDYAPIVF  323 (435)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHH-HHHHHHHHHHhcccccCCCEEE
Confidence            234678999999999999987755442 3333332   3579999999999873221 111111122    223578999


Q ss_pred             EccCCCCCHHHHHHHHHHHHHHHhhhhccC
Q 040481          158 TSALDSTNVKSAFEIVIREIYSNVSRKVLN  187 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~~~~~~~~~~  187 (222)
                      +||++|.|+.++++.+.+. ++...++.++
T Consensus       324 ~SA~~~~gv~~l~~~i~~~-~~~~~~~i~t  352 (435)
T PRK00093        324 ISALTGQGVDKLLEAIDEA-YENANRRIST  352 (435)
T ss_pred             EeCCCCCCHHHHHHHHHHH-HHHHcCcCCh
Confidence            9999999999999987764 4444444443

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.82  E-value=8.6e-19  Score=153.15  Aligned_cols=159  Identities=20%  Similarity=0.255  Sum_probs=113.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC--C-----CC------CCccceeEEEEEEE--E---CCeEEEEEEEeCCCcc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN--P-----HS------KATIGVEFQTQSME--I---DGKEVKAQIWDTAGQE   76 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~--~-----~~------~~~~~~~~~~~~~~--~---~~~~~~~~i~D~~G~~   76 (222)
                      ...+++|+|+.++|||||+.+|+.....  .     ..      ....+.++....+.  +   ++..+.+++|||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            3458999999999999999999763211  0     00      01123333322222  2   4557889999999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe--
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF--  154 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~--  154 (222)
                      .+...+..+++.+|++|+|+|++++........|....    ..++|+++|+||+|+....  ......++...+++.  
T Consensus        86 dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~----~~~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~  159 (600)
T PRK05433         86 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL----ENDLEIIPVLNKIDLPAAD--PERVKQEIEDVIGIDAS  159 (600)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH----HCCCCEEEEEECCCCCccc--HHHHHHHHHHHhCCCcc
Confidence            99988899999999999999999876655555554433    2357999999999986422  122233444445543  


Q ss_pred             -EEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          155 -FMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       155 -~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                       ++++||++|.|+++++++|.+.+..
T Consensus       160 ~vi~iSAktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        160 DAVLVSAKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             eEEEEecCCCCCHHHHHHHHHHhCcc
Confidence             8999999999999999999886643

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.82  E-value=2e-19  Score=124.83  Aligned_cols=160  Identities=27%  Similarity=0.361  Sum_probs=121.4

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      +++.++.+||+++|-.++|||||++.|.+... ....|+.|  +..+.+.+++ .+++.+||++|+......|..+|.+.
T Consensus        11 ks~t~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~G--Fn~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenv   86 (185)
T KOG0074|consen   11 KSRTRREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNG--FNTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENV   86 (185)
T ss_pred             cCCCcceEEEEEEecCCCcchhHHHHHccCCh-hhccccCC--cceEEEeecC-cEEEEEEecCCccccchhhhhhhhcc
Confidence            35668899999999999999999999976553 23344444  5555565554 57899999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEEccCCC
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-----EGLFFMETSALDS  163 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~  163 (222)
                      |++|||+|-+|...|+++.+.+.++.... -..+|++|..||.|+.-.  ...++...-+..     .-+-+-+|||.++
T Consensus        87 d~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdllta--a~~eeia~klnl~~lrdRswhIq~csals~  164 (185)
T KOG0074|consen   87 DGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTA--AKVEEIALKLNLAGLRDRSWHIQECSALSL  164 (185)
T ss_pred             ceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhh--cchHHHHHhcchhhhhhceEEeeeCccccc
Confidence            99999999999999999977666654443 477999999999998632  222222211111     1244788999999


Q ss_pred             CCHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIR  175 (222)
Q Consensus       164 ~~i~~~~~~i~~  175 (222)
                      +|+.+..+|+..
T Consensus       165 eg~~dg~~wv~s  176 (185)
T KOG0074|consen  165 EGSTDGSDWVQS  176 (185)
T ss_pred             cCccCcchhhhc
Confidence            999998887754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.82  E-value=6.6e-19  Score=149.58  Aligned_cols=150  Identities=19%  Similarity=0.189  Sum_probs=106.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCc--------chhhhhHHHhhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ--------ERFRAVTSAYYRG   88 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~~~~   88 (222)
                      +|+++|.+|||||||+|+|++..... ...+..+.+.....+..++.  .+.+|||||.        ..+......+++.
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~--~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~   78 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGR--EFILIDTGGIEEDDDGLDKQIREQAEIAIEE   78 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCe--EEEEEECCCCCCcchhHHHHHHHHHHHHHhh
Confidence            58999999999999999999876432 22344455555555555554  5789999995        3344556677899


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVK  167 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  167 (222)
                      +|++++|+|+.++.+... ..+...++.   .+.|+++|+||+|+......    ..+ ...++. +++++||.+|.|+.
T Consensus        79 ad~vl~vvD~~~~~~~~d-~~i~~~l~~---~~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~  149 (429)
T TIGR03594        79 ADVILFVVDGREGLTPED-EEIAKWLRK---SGKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIG  149 (429)
T ss_pred             CCEEEEEEeCCCCCCHHH-HHHHHHHHH---hCCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChH
Confidence            999999999988654332 122233332   35799999999998653321    122 234555 69999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          168 SAFEIVIREIY  178 (222)
Q Consensus       168 ~~~~~i~~~~~  178 (222)
                      ++++.+.+.+.
T Consensus       150 ~ll~~i~~~l~  160 (429)
T TIGR03594       150 DLLDAILELLP  160 (429)
T ss_pred             HHHHHHHHhcC
Confidence            99998887653

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.81  E-value=1.5e-18  Score=155.11  Aligned_cols=165  Identities=19%  Similarity=0.181  Sum_probs=112.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc----------hhhhh-H
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE----------RFRAV-T   82 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~-~   82 (222)
                      ..++|+++|.++||||||+++|++.... ....+.++.+.....+.+++..  +.+|||||..          .+... .
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~--~~liDTaG~~~~~~~~~~~e~~~~~r~  526 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGED--WLFIDTAGIKRRQHKLTGAEYYSSLRT  526 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCE--EEEEECCCcccCcccchhHHHHHHHHH
Confidence            4589999999999999999999988752 2233444555544555566654  5599999953          12221 2


Q ss_pred             HHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH-HHHHH----cCCeEEE
Q 040481           83 SAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK-SLAEA----EGLFFME  157 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~~  157 (222)
                      ...++.+|++|+|+|++++.++..+. ++..+..   .+.|+++|+||+|+.+...  .+... .+...    ..+++++
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~  600 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVN  600 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEE
Confidence            34578999999999999998876654 3333332   4579999999999964221  11121 12221    2456799


Q ss_pred             EccCCCCCHHHHHHHHHHHHHHHhhhhccCC
Q 040481          158 TSALDSTNVKSAFEIVIREIYSNVSRKVLNS  188 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~~~~~~~~~~s  188 (222)
                      +||++|.|++++|+.+.+.+ ....++.+++
T Consensus       601 iSAktg~gv~~L~~~i~~~~-~~~~~~i~T~  630 (712)
T PRK09518        601 LSAKTGWHTNRLAPAMQEAL-ESWDQRIPTG  630 (712)
T ss_pred             EECCCCCCHHHHHHHHHHHH-HHhcccCChH
Confidence            99999999999999877754 4555555554

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.81  E-value=5.1e-18  Score=123.40  Aligned_cols=159  Identities=24%  Similarity=0.382  Sum_probs=121.8

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCC--------CCCCC--ccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFN--------PHSKA--TIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV   81 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~--------~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   81 (222)
                      .+....||++.|+.++||||+++++......        .....  .+++-.++....+++ +..++++++|||+++..+
T Consensus         6 ~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~-~~~v~LfgtPGq~RF~fm   84 (187)
T COG2229           6 NKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDE-DTGVHLFGTPGQERFKFM   84 (187)
T ss_pred             ccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcC-cceEEEecCCCcHHHHHH
Confidence            4566789999999999999999999876531        11111  133444444554444 245779999999999999


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEEc
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE--GLFFMETS  159 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~s  159 (222)
                      |..+.+.+++.|+++|.+.+..+ ...+.+..+.....  +|++|.+||.||.+  ..+.+.+++.....  .++.++.+
T Consensus        85 ~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~--ip~vVa~NK~DL~~--a~ppe~i~e~l~~~~~~~~vi~~~  159 (187)
T COG2229          85 WEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNP--IPVVVAINKQDLFD--ALPPEKIREALKLELLSVPVIEID  159 (187)
T ss_pred             HHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccC--CCEEEEeeccccCC--CCCHHHHHHHHHhccCCCceeeee
Confidence            99999999999999999999988 44555555544332  89999999999984  46667777666665  78999999


Q ss_pred             cCCCCCHHHHHHHHHHH
Q 040481          160 ALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~  176 (222)
                      |.++++..+.+..+..+
T Consensus       160 a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         160 ATEGEGARDQLDVLLLK  176 (187)
T ss_pred             cccchhHHHHHHHHHhh
Confidence            99999999988876654

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.80  E-value=1.9e-18  Score=154.33  Aligned_cols=153  Identities=13%  Similarity=0.127  Sum_probs=111.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh----------hHHHh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA----------VTSAY   85 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~   85 (222)
                      .++|+++|+++||||||+|+|++........+..+  ++.....+...+..+.+||+||...+..          ....+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvT--ve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVT--VERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCce--EeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            46899999999999999999998765444444444  4444444445566788999999765532          12223


Q ss_pred             h--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           86 Y--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        86 ~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      +  ..+|++++|+|+++.+..   ..+...+.+   .++|+++++||+|+.+.+.+ ....+.+.+.++++++++||.++
T Consensus        81 l~~~~aD~vI~VvDat~ler~---l~l~~ql~e---~giPvIvVlNK~Dl~~~~~i-~id~~~L~~~LG~pVvpiSA~~g  153 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERN---LYLTLQLLE---LGIPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVSTRG  153 (772)
T ss_pred             HhccCCCEEEEEecCCcchhh---HHHHHHHHH---cCCCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEeecC
Confidence            2  478999999999886542   223333333   45899999999998754444 34567788889999999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREI  177 (222)
Q Consensus       164 ~~i~~~~~~i~~~~  177 (222)
                      +|++++.+.+.+..
T Consensus       154 ~GIdeL~~~I~~~~  167 (772)
T PRK09554        154 RGIEALKLAIDRHQ  167 (772)
T ss_pred             CCHHHHHHHHHHhh
Confidence            99999988776643

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.80  E-value=1.7e-18  Score=150.41  Aligned_cols=157  Identities=17%  Similarity=0.157  Sum_probs=103.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCC----ccceeEEEEEE------------EECCeEEEEEEEeCCCcchhh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA----TIGVEFQTQSM------------EIDGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~----~~~~~~~~~~~------------~~~~~~~~~~i~D~~G~~~~~   79 (222)
                      .+-|+++|++++|||||+++|.+..+......    +.+..+.....            .++.....+.+|||||++.|.
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~   83 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFT   83 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHH
Confidence            45799999999999999999998766433222    22221111110            000011237899999999999


Q ss_pred             hhHHHhhcCCCEEEEEEECCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC------------CHHH-
Q 040481           80 AVTSAYYRGAVGALIVYDITR---RTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV------------STEE-  143 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~------------~~~~-  143 (222)
                      .++..+++.+|++++|||+++   +++++.+.    .+..   .++|+++++||+|+.+....            ..+. 
T Consensus        84 ~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~----~l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v  156 (590)
T TIGR00491        84 NLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQV  156 (590)
T ss_pred             HHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH----HHHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHH
Confidence            999999999999999999987   44544332    2222   35799999999999642110            0000 


Q ss_pred             -----------HHHHHH------------H--cCCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          144 -----------GKSLAE------------A--EGLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       144 -----------~~~~~~------------~--~~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                                 ..++..            .  ..++++++||++|+|+++++.++......
T Consensus       157 ~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~~  217 (590)
T TIGR00491       157 QQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQQ  217 (590)
T ss_pred             HHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHHH
Confidence                       011111            1  13679999999999999999988765443

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.80  E-value=1.1e-18  Score=143.64  Aligned_cols=170  Identities=26%  Similarity=0.218  Sum_probs=118.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcc----------hhhh-hH
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE----------RFRA-VT   82 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~-~~   82 (222)
                      ..++|+|+|.|++|||||+|+|++....-. ..+.++.+.-...+..++..  +.++||+|..          .|.. -.
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~--~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRK--YVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeE--EEEEECCCCCcccccccceEEEeehhh
Confidence            569999999999999999999999875332 23444444444455555554  5699999932          2221 23


Q ss_pred             HHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH-----HHHcCCeEEE
Q 040481           83 SAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSL-----AEAEGLFFME  157 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~  157 (222)
                      ...+..+|.+++|+|+..+.+    .+..+.+.-..+.+.+++||+||+|+.+.+....++.+..     ..-..++.+.
T Consensus       255 ~~aI~~a~vvllviDa~~~~~----~qD~~ia~~i~~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~  330 (444)
T COG1160         255 LKAIERADVVLLVIDATEGIS----EQDLRIAGLIEEAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVF  330 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCch----HHHHHHHHHHHHcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEE
Confidence            456788999999999999966    3333333333345679999999999976543443333222     2223678999


Q ss_pred             EccCCCCCHHHHHHHHHHHHHHHhhhhccCCcch
Q 040481          158 TSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSY  191 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~~~~~~~~~~s~~~  191 (222)
                      +||.++.++..+|+.+ ..+++...++.+++..-
T Consensus       331 iSA~~~~~i~~l~~~i-~~~~~~~~~ri~Ts~LN  363 (444)
T COG1160         331 ISALTGQGLDKLFEAI-KEIYECATRRISTSLLN  363 (444)
T ss_pred             EEecCCCChHHHHHHH-HHHHHHhccccCHHHHH
Confidence            9999999999999954 55888888877766543

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.80  E-value=2.4e-18  Score=131.80  Aligned_cols=117  Identities=18%  Similarity=0.343  Sum_probs=87.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC-CEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA-VGALIVY   96 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~-d~vi~v~   96 (222)
                      +|+++|+++||||+|+++|....+...+.++ ............+....+.+||+||+..+...+..+++.+ +++|||+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            6899999999999999999988765544332 2222221121123456788999999999988888899998 9999999


Q ss_pred             ECCCh-hhHHHHHHHHHHHHhc---CCCCCcEEEEEeCCCCCc
Q 040481           97 DITRR-TTFDSISRWLDELKTH---SDTTVARMLVGNKCDLES  135 (222)
Q Consensus        97 d~~~~-~s~~~~~~~~~~i~~~---~~~~~p~iiv~nK~Dl~~  135 (222)
                      |+.+. .++..+..|+..+...   ...++|++|++||+|+..
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            99998 6777776665444322   235789999999999853

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.80  E-value=2.5e-18  Score=153.74  Aligned_cols=156  Identities=18%  Similarity=0.140  Sum_probs=105.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--------hhhhHHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--------FRAVTSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~   84 (222)
                      ....+|+|+|.++||||||+|+|++..... ...+..+.+.......+.+  ..+.+|||||...        +......
T Consensus       273 ~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~  350 (712)
T PRK09518        273 KAVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQI  350 (712)
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHHH
Confidence            344689999999999999999999875422 2234444444443444444  4578999999653        2344456


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      ++..+|++|+|+|+.++..... ..|...+..   .+.|+++|+||+|+....   ......+....+ ..+++||++|.
T Consensus       351 ~~~~aD~iL~VvDa~~~~~~~d-~~i~~~Lr~---~~~pvIlV~NK~D~~~~~---~~~~~~~~lg~~-~~~~iSA~~g~  422 (712)
T PRK09518        351 AVSLADAVVFVVDGQVGLTSTD-ERIVRMLRR---AGKPVVLAVNKIDDQASE---YDAAEFWKLGLG-EPYPISAMHGR  422 (712)
T ss_pred             HHHhCCEEEEEEECCCCCCHHH-HHHHHHHHh---cCCCEEEEEECcccccch---hhHHHHHHcCCC-CeEEEECCCCC
Confidence            7899999999999987532111 245555543   467999999999986421   111222222223 35789999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREIYS  179 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~  179 (222)
                      ||+++|+++++.+..
T Consensus       423 GI~eLl~~i~~~l~~  437 (712)
T PRK09518        423 GVGDLLDEALDSLKV  437 (712)
T ss_pred             CchHHHHHHHHhccc
Confidence            999999999887643

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.80  E-value=1.5e-18  Score=142.75  Aligned_cols=151  Identities=20%  Similarity=0.114  Sum_probs=111.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcchh---------hhhHHHhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF---------RAVTSAYY   86 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~   86 (222)
                      +.|+|+|.|+||||||+|+|.+....-. ..|.++.+..+......+..  |.++||+|.+..         .......+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~--f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGRE--FILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCce--EEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            6799999999999999999999887543 44667777777777776655  779999995422         23345678


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      ..||++|||+|...+-+-.. ......++   ..+.|+++|+||+|-.    ...+...+|...-.-.++++||..|.|+
T Consensus        82 ~eADvilfvVD~~~Git~~D-~~ia~~Lr---~~~kpviLvvNK~D~~----~~e~~~~efyslG~g~~~~ISA~Hg~Gi  153 (444)
T COG1160          82 EEADVILFVVDGREGITPAD-EEIAKILR---RSKKPVILVVNKIDNL----KAEELAYEFYSLGFGEPVPISAEHGRGI  153 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHH-HHHHHHHH---hcCCCEEEEEEcccCc----hhhhhHHHHHhcCCCCceEeehhhccCH
Confidence            99999999999988654111 22333333   3457999999999964    2223334444444456999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          167 KSAFEIVIREI  177 (222)
Q Consensus       167 ~~~~~~i~~~~  177 (222)
                      .++++.++..+
T Consensus       154 ~dLld~v~~~l  164 (444)
T COG1160         154 GDLLDAVLELL  164 (444)
T ss_pred             HHHHHHHHhhc
Confidence            99999888876

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.79  E-value=1.1e-18  Score=147.80  Aligned_cols=157  Identities=20%  Similarity=0.166  Sum_probs=102.9

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-----------------------------CCCccceeEEEEEEEECCe
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-----------------------------SKATIGVEFQTQSMEIDGK   63 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   63 (222)
                      ..+.++|+++|++++|||||+++|+.......                             .....+++.......+...
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~   82 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETD   82 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecC
Confidence            45679999999999999999999984321100                             0012344444444555556


Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESIRN----  138 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~----  138 (222)
                      .+.+.+|||||++.+.......+..+|++|+|+|+++...+... ..++..+....  ..|+++++||+|+.+...    
T Consensus        83 ~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~  160 (425)
T PRK12317         83 KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLG--INQLIVAINKMDAVNYDEKRYE  160 (425)
T ss_pred             CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcC--CCeEEEEEEccccccccHHHHH
Confidence            67889999999988866655667899999999999873112111 22222232221  136889999999974211    


Q ss_pred             CCHHHHHHHHHHcC-----CeEEEEccCCCCCHHHHHH
Q 040481          139 VSTEEGKSLAEAEG-----LFFMETSALDSTNVKSAFE  171 (222)
Q Consensus       139 ~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~~  171 (222)
                      ...+++..+....+     ++++++||++|.|+.++..
T Consensus       161 ~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        161 EVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             HHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence            11234444554444     5799999999999998553

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.79  E-value=1.8e-18  Score=146.48  Aligned_cols=156  Identities=17%  Similarity=0.138  Sum_probs=104.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCc--CCC---------------------------CCCCccceeEEEEEEEECCe
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNE--FNP---------------------------HSKATIGVEFQTQSMEIDGK   63 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~--~~~---------------------------~~~~~~~~~~~~~~~~~~~~   63 (222)
                      ....++|+++|+.++|||||+.+|+...  ...                           ......+++.......+...
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~   83 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETD   83 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccC
Confidence            4567899999999999999999997521  110                           00011234444444555556


Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHH--HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC---
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI--SRWLDELKTHSDTTVARMLVGNKCDLESIRN---  138 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~--~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~---  138 (222)
                      .+.+.+||+||++.|.......+..+|++|+|+|+++++++...  ..++..... . ...|++|++||+|+.+...   
T Consensus        84 ~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~-~-~~~~iIVviNK~Dl~~~~~~~~  161 (426)
T TIGR00483        84 KYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLART-L-GINQLIVAINKMDSVNYDEEEF  161 (426)
T ss_pred             CeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHH-c-CCCeEEEEEEChhccCccHHHH
Confidence            67889999999998877666678899999999999988543111  111122222 1 1247888999999964222   


Q ss_pred             -CCHHHHHHHHHHcC-----CeEEEEccCCCCCHHHHH
Q 040481          139 -VSTEEGKSLAEAEG-----LFFMETSALDSTNVKSAF  170 (222)
Q Consensus       139 -~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~  170 (222)
                       ...+++..++...+     ++++++||++|.|+.+++
T Consensus       162 ~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       162 EAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence             11234455665554     679999999999998754

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.

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.78  E-value=2.8e-17  Score=128.42  Aligned_cols=151  Identities=25%  Similarity=0.220  Sum_probs=101.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh-------hhHHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-------AVTSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d   90 (222)
                      +|+++|++++|||||+++|.+........+.++.+.....+.+.+  ..+++||+||.....       ......++.+|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            789999999999999999998764333333334444455555554  567899999964321       23345789999


Q ss_pred             EEEEEEECCChh-hHHHHHHHHHHH-----------------------------------------Hhc-----------
Q 040481           91 GALIVYDITRRT-TFDSISRWLDEL-----------------------------------------KTH-----------  117 (222)
Q Consensus        91 ~vi~v~d~~~~~-s~~~~~~~~~~i-----------------------------------------~~~-----------  117 (222)
                      ++++|+|++++. ....+...+...                                         .++           
T Consensus        80 ~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~  159 (233)
T cd01896          80 LILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIRE  159 (233)
T ss_pred             EEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEcc
Confidence            999999998765 333332222111                                         000           


Q ss_pred             -------------CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          118 -------------SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       118 -------------~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                                   ...-+|+++|+||+|+..     .++...++..  ..++++||+++.|++++|+.+.+.+
T Consensus       160 ~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         160 DITVDDLIDVIEGNRVYIPCLYVYNKIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CCCHHHHHHHHhCCceEeeEEEEEECccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                         001268899999999853     3344444443  4589999999999999999887743

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.78  E-value=5e-21  Score=138.71  Aligned_cols=175  Identities=38%  Similarity=0.659  Sum_probs=146.3

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe-EEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK-EVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..+.++++|+|..|+|||++++++....+...|..+++.++.......+.. -+.+++||+.|++++..+..-+|+.+.+
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            356689999999999999999999999998999999998888877777654 4568899999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCC-HHHHHHHHHHcCCe-EEEEccCCCCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHS----DTTVARMLVGNKCDLESIRNVS-TEEGKSLAEAEGLF-FMETSALDSTN  165 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~iiv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~-~~~~sa~~~~~  165 (222)
                      .++|||++..-+|+.+.+|.+.+....    ...+|+++..||+|+....... .....++.++++.. .+++|++.+.+
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkn  181 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKN  181 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccC
Confidence            999999999999999999999886553    2457778889999986533322 35667788888754 99999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhccC
Q 040481          166 VKSAFEIVIREIYSNVSRKVLN  187 (222)
Q Consensus       166 i~~~~~~i~~~~~~~~~~~~~~  187 (222)
                      ++|+-..++++++-.-.+.+.+
T Consensus       182 i~Ea~r~lVe~~lvnd~q~~~s  203 (229)
T KOG4423|consen  182 IPEAQRELVEKILVNDEQPIKS  203 (229)
T ss_pred             hhHHHHHHHHHHHhhccCCccc
Confidence            9999999999887665554433

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.78  E-value=4e-18  Score=143.37  Aligned_cols=162  Identities=20%  Similarity=0.163  Sum_probs=104.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCC---CCCCCccceeEEEEE------------------EEECC------eEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFN---PHSKATIGVEFQTQS------------------MEIDG------KEVK   66 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~------------------~~~~~------~~~~   66 (222)
                      ...++|+++|+.++|||||+++|.+....   ++.....+.......                  ..+++      ....
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRR   81 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccE
Confidence            45789999999999999999999764221   111111111111000                  00011      1457


Q ss_pred             EEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHH
Q 040481           67 AQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV--STEEG  144 (222)
Q Consensus        67 ~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~  144 (222)
                      +.+||+||++.|...+......+|++|+|+|++++.......+.+..+....  ..|+++++||+|+.+....  ..+++
T Consensus        82 i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~g--i~~iIVvvNK~Dl~~~~~~~~~~~~i  159 (406)
T TIGR03680        82 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIG--IKNIVIVQNKIDLVSKEKALENYEEI  159 (406)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcC--CCeEEEEEEccccCCHHHHHHHHHHH
Confidence            8899999999998888888889999999999997531112222233332221  2368899999999753221  12333


Q ss_pred             HHHHHHc---CCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          145 KSLAEAE---GLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       145 ~~~~~~~---~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      .++....   +++++++||++|.|++++++.|...+
T Consensus       160 ~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       160 KEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             HhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            3333332   67899999999999999999887654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.78  E-value=9.9e-18  Score=138.30  Aligned_cols=155  Identities=22%  Similarity=0.189  Sum_probs=111.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh--------HHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV--------TSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~   84 (222)
                      ..-++|+++|.|+||||||+|+|++....-. ..+.++.++-...+.++|  +.++++||+|..+....        ...
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs~~  292 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERAKK  292 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHHHH
Confidence            3448999999999999999999999876543 446666677777777776  66779999996554322        334


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      .+..||.+++|+|++.+.+-    .....+. ....+.|+++|.||.|+........     +....+.+++.+|+++++
T Consensus       293 ~i~~ADlvL~v~D~~~~~~~----~d~~~~~-~~~~~~~~i~v~NK~DL~~~~~~~~-----~~~~~~~~~i~iSa~t~~  362 (454)
T COG0486         293 AIEEADLVLFVLDASQPLDK----EDLALIE-LLPKKKPIIVVLNKADLVSKIELES-----EKLANGDAIISISAKTGE  362 (454)
T ss_pred             HHHhCCEEEEEEeCCCCCch----hhHHHHH-hcccCCCEEEEEechhcccccccch-----hhccCCCceEEEEecCcc
Confidence            67899999999999986331    1111111 3345679999999999986443221     122234468999999999


Q ss_pred             CHHHHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREIYSN  180 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~  180 (222)
                      |++.+.+.|.+.+...
T Consensus       363 Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         363 GLDALREAIKQLFGKG  378 (454)
T ss_pred             CHHHHHHHHHHHHhhc
Confidence            9999988777765544

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.78  E-value=9.9e-18  Score=127.38  Aligned_cols=148  Identities=16%  Similarity=0.127  Sum_probs=99.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCC---C-----------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFN---P-----------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV   81 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~---~-----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   81 (222)
                      .++|+++|+.++|||||+++|+.....   .           ......+++.......+......+.++||||+..+...
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~   81 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKN   81 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHH
Confidence            589999999999999999999764100   0           00112344455555556556667889999999888777


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC---HHHHHHHHHHc-----C
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNVS---TEEGKSLAEAE-----G  152 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~-----~  152 (222)
                      ....+..+|++++|+|+..+.. ......+..+..   .++| +++++||+|+.......   .+++..+....     +
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~-~~~~~~~~~~~~---~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~  157 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPM-PQTREHLLLARQ---VGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDN  157 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccC
Confidence            7788899999999999987633 122333333433   3356 67889999986322211   12334444333     4


Q ss_pred             CeEEEEccCCCCCHH
Q 040481          153 LFFMETSALDSTNVK  167 (222)
Q Consensus       153 ~~~~~~sa~~~~~i~  167 (222)
                      ++++++||.+|.++.
T Consensus       158 v~iipiSa~~g~n~~  172 (195)
T cd01884         158 TPIVRGSALKALEGD  172 (195)
T ss_pred             CeEEEeeCccccCCC
Confidence            789999999999864

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.78  E-value=8.6e-18  Score=124.25  Aligned_cols=150  Identities=19%  Similarity=0.232  Sum_probs=97.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----------hhhhHHHhhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----------FRAVTSAYYR   87 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~~~~~   87 (222)
                      .|+++|++|+|||||++.+.+........++.+.+.....+..+.   .+.+||+||...          +......++.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            389999999999999999996555444444444444444444443   678999999432          3333333443


Q ss_pred             ---CCCEEEEEEECCChhh--HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHH--HcCCeEEEE
Q 040481           88 ---GAVGALIVYDITRRTT--FDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEGKSLAE--AEGLFFMET  158 (222)
Q Consensus        88 ---~~d~vi~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~--~~~~~~~~~  158 (222)
                         .++++++++|..+..+  ...+..|+...      +.|+++|+||+|+.......  .........  ....+++++
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~------~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  151 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL------GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILF  151 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc------CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEE
Confidence               4578899999976632  22233444332      37999999999985322211  112222222  345679999


Q ss_pred             ccCCCCCHHHHHHHHHHH
Q 040481          159 SALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.++.+++++|.+.
T Consensus       152 Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         152 SSLKGQGIDELRALIEKW  169 (170)
T ss_pred             ecCCCCCHHHHHHHHHHh
Confidence            999999999999988764

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.78  E-value=7.8e-18  Score=147.41  Aligned_cols=155  Identities=17%  Similarity=0.137  Sum_probs=104.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc---CCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE---FNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      -|+++|+.++|||||+++|++..   +..+....++.+.....+...+ ...+.+||+||++.|.......+..+|++++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~-g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lL   80 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPD-GRVLGFIDVPGHEKFLSNMLAGVGGIDHALL   80 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCC-CcEEEEEECCCHHHHHHHHHHHhhcCCEEEE
Confidence            47899999999999999998643   2333333444444333332222 2347899999999998777788899999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC--HHHHHHHHHHcC---CeEEEEccCCCCCHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNVS--TEEGKSLAEAEG---LFFMETSALDSTNVKS  168 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~---~~~~~~sa~~~~~i~~  168 (222)
                      |+|++++.. ....+.+..+..   .++| ++||+||+|+.+...+.  .+++.++....+   ++++++||++|.|+++
T Consensus        81 VVda~eg~~-~qT~ehl~il~~---lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~  156 (614)
T PRK10512         81 VVACDDGVM-AQTREHLAILQL---TGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDA  156 (614)
T ss_pred             EEECCCCCc-HHHHHHHHHHHH---cCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHH
Confidence            999987422 111222233322   2245 47899999997532221  233444444433   6899999999999999


Q ss_pred             HHHHHHHHH
Q 040481          169 AFEIVIREI  177 (222)
Q Consensus       169 ~~~~i~~~~  177 (222)
                      +++.|.+..
T Consensus       157 L~~~L~~~~  165 (614)
T PRK10512        157 LREHLLQLP  165 (614)
T ss_pred             HHHHHHHhh
Confidence            999887643

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.78  E-value=3.7e-18  Score=131.34  Aligned_cols=149  Identities=21%  Similarity=0.186  Sum_probs=94.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCC-----------------------------CCccceeEEEEEEEECCeEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHS-----------------------------KATIGVEFQTQSMEIDGKEVKAQ   68 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~   68 (222)
                      +|+++|++++|||||+++|+........                             ....+++.......+......+.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~   80 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI   80 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence            5899999999999999999764321110                             00022233333333434455778


Q ss_pred             EEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC----CHHHH
Q 040481           69 IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV----STEEG  144 (222)
Q Consensus        69 i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~----~~~~~  144 (222)
                      +|||||+..+.......+..+|++|+|+|++++..- ........+....  ..++++|+||+|+.+....    ...+.
T Consensus        81 liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~-~~~~~~~~~~~~~--~~~iIvviNK~D~~~~~~~~~~~i~~~~  157 (208)
T cd04166          81 IADTPGHEQYTRNMVTGASTADLAILLVDARKGVLE-QTRRHSYILSLLG--IRHVVVAVNKMDLVDYSEEVFEEIVADY  157 (208)
T ss_pred             EEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccH-hHHHHHHHHHHcC--CCcEEEEEEchhcccCCHHHHHHHHHHH
Confidence            999999988876666778999999999999876421 1122222222221  1356778999998642211    11233


Q ss_pred             HHHHHHcC---CeEEEEccCCCCCHHHH
Q 040481          145 KSLAEAEG---LFFMETSALDSTNVKSA  169 (222)
Q Consensus       145 ~~~~~~~~---~~~~~~sa~~~~~i~~~  169 (222)
                      ..+....+   .+++++||++|.|+.+.
T Consensus       158 ~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         158 LAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            44445555   45899999999999864

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.77  E-value=2.6e-17  Score=143.46  Aligned_cols=159  Identities=18%  Similarity=0.217  Sum_probs=112.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC--cCCCC------------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN--EFNPH------------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV   81 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~--~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   81 (222)
                      ..+|+|+|+.++|||||+++|+..  .+...            ...+.+.++......+....+.+++|||||+..|...
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~   84 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGE   84 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHH
Confidence            458999999999999999999873  22211            1234456666666666666788999999999999999


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHHH-------HHcCC
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN-VSTEEGKSLA-------EAEGL  153 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~-~~~~~~~~~~-------~~~~~  153 (222)
                      +..+++.+|++|+|+|+.++..... ..++..+..   .++|.++++||+|+...+. ...+++..+.       ....+
T Consensus        85 v~~~l~~aDg~ILVVDa~~G~~~qt-~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~  160 (607)
T PRK10218         85 VERVMSMVDSVLLVVDAFDGPMPQT-RFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDF  160 (607)
T ss_pred             HHHHHHhCCEEEEEEecccCccHHH-HHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCC
Confidence            9999999999999999988643322 233333333   4578899999999864221 1112233222       12357


Q ss_pred             eEEEEccCCCC----------CHHHHHHHHHHHHH
Q 040481          154 FFMETSALDST----------NVKSAFEIVIREIY  178 (222)
Q Consensus       154 ~~~~~sa~~~~----------~i~~~~~~i~~~~~  178 (222)
                      +++.+||.+|.          ++..+|+.|++.+-
T Consensus       161 PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        161 PIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             CEEEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence            79999999998          57777776666554

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.77  E-value=3.5e-17  Score=142.65  Aligned_cols=157  Identities=20%  Similarity=0.199  Sum_probs=101.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCC----ccceeEEEEEEE--ECCeE-----E-----EEEEEeCCCcch
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA----TIGVEFQTQSME--IDGKE-----V-----KAQIWDTAGQER   77 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~----~~~~~~~~~~~~--~~~~~-----~-----~~~i~D~~G~~~   77 (222)
                      .+.+.|+++|++++|||||+++|.+.........    +.+..+......  ..+..     .     .+.+|||||++.
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHH
Confidence            3456899999999999999999987654322221    222211111100  00111     1     167999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC----C--------HH
Q 040481           78 FRAVTSAYYRGAVGALIVYDITR---RTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV----S--------TE  142 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~----~--------~~  142 (222)
                      |..++...+..+|++|+|+|+++   +++++.+..    +..   .++|+++++||+|+......    .        ..
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~  156 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQ  156 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhH
Confidence            99888888899999999999998   555544432    222   46799999999998521110    0        00


Q ss_pred             H-----------H-HHHHH--------------HcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          143 E-----------G-KSLAE--------------AEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       143 ~-----------~-~~~~~--------------~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      .           . ..+..              ...++++++||.+|.|+++++..+...+
T Consensus       157 ~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        157 RVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence            0           0 01110              0136799999999999999998876544

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.77  E-value=1.8e-17  Score=117.91  Aligned_cols=135  Identities=23%  Similarity=0.270  Sum_probs=97.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC----cchhhhhHHHhhcCCCEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG----QERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----~~~~~~~~~~~~~~~d~vi   93 (222)
                      ||+++|+.|+|||||+++|.+...  .+..|..+.       +.     =.++||||    +..+..........+|.|+
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~-------~~-----~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIE-------YY-----DNTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeE-------ec-----ccEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            899999999999999999988664  233332211       11     13799999    4555556666678999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEEccCCCCCHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEI  172 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~  172 (222)
                      +|.|++++.+.     +-..+...  -..|+|-|+||.|+.. .....+.++++....|+. +|++|+.+|+|++++.++
T Consensus        69 ll~dat~~~~~-----~pP~fa~~--f~~pvIGVITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~  140 (143)
T PF10662_consen   69 LLQDATEPRSV-----FPPGFASM--FNKPVIGVITKIDLPS-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDY  140 (143)
T ss_pred             EEecCCCCCcc-----CCchhhcc--cCCCEEEEEECccCcc-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHH
Confidence            99999987541     11111111  2369999999999984 234556677788877765 899999999999999887


Q ss_pred             HH
Q 040481          173 VI  174 (222)
Q Consensus       173 i~  174 (222)
                      |-
T Consensus       141 L~  142 (143)
T PF10662_consen  141 LE  142 (143)
T ss_pred             Hh
Confidence            63

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.77  E-value=1.3e-17  Score=145.43  Aligned_cols=157  Identities=20%  Similarity=0.242  Sum_probs=110.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc--CCCCC------------CCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHH
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE--FNPHS------------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTS   83 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~--~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   83 (222)
                      +|+|+|+.++|||||+.+|+...  +....            ....+.++......+....+.+.+|||||+..|...+.
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~   82 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVE   82 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHH
Confidence            79999999999999999998632  21110            11223444444444444567889999999999998889


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC-CHHHHHHHH-------HHcCCeE
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV-STEEGKSLA-------EAEGLFF  155 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~-~~~~~~~~~-------~~~~~~~  155 (222)
                      .+++.+|++++|+|+.++. +.....|+..+..   .++|+++++||+|+.+.+.. ..+++..+.       ....+++
T Consensus        83 ~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pv  158 (594)
T TIGR01394        83 RVLGMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPI  158 (594)
T ss_pred             HHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHH---CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcE
Confidence            9999999999999998753 3444556665554   45799999999998643211 112223332       2235789


Q ss_pred             EEEccCCCC----------CHHHHHHHHHHHHH
Q 040481          156 METSALDST----------NVKSAFEIVIREIY  178 (222)
Q Consensus       156 ~~~sa~~~~----------~i~~~~~~i~~~~~  178 (222)
                      +.+||++|.          |+..+|+.+++.+.
T Consensus       159 l~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       159 VYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             EechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence            999999995          79999888887654

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.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.76  E-value=1.2e-17  Score=140.53  Aligned_cols=163  Identities=20%  Similarity=0.180  Sum_probs=102.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC---CCCCCccceeEEEEEEE------------E------C--C----eEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN---PHSKATIGVEFQTQSME------------I------D--G----KEV   65 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~~~------------~------~--~----~~~   65 (222)
                      ..+.++|+++|+.++|||||+.+|.+....   .+.....+.........            +      +  +    ...
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLR   85 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccccc
Confidence            455699999999999999999999664221   11111122221111000            0      0  0    135


Q ss_pred             EEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHH
Q 040481           66 KAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEE  143 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~  143 (222)
                      .+.+||+||++.+..........+|++++|+|+.++.........+..+....  ..|+++|+||+|+.+.....  .++
T Consensus        86 ~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~--i~~iiVVlNK~Dl~~~~~~~~~~~~  163 (411)
T PRK04000         86 RVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIG--IKNIVIVQNKIDLVSKERALENYEQ  163 (411)
T ss_pred             EEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcC--CCcEEEEEEeeccccchhHHHHHHH
Confidence            78999999999887766666778899999999996531111111222222211  13688999999997533221  223


Q ss_pred             HHHHHHH---cCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          144 GKSLAEA---EGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       144 ~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      +..+...   .+++++++||++|.|++++++.|...+
T Consensus       164 i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        164 IKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            3344432   257899999999999999999887654

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.75  E-value=1.9e-18  Score=120.27  Aligned_cols=159  Identities=23%  Similarity=0.338  Sum_probs=116.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ....+|+++|-.|+||||++.++.-++... ..|+++..  +..+.+  +.+++++||..|+-.....|+.+|.+.|++|
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgevvt-tkPtigfn--ve~v~y--KNLk~~vwdLggqtSirPyWRcYy~dt~avI   90 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEVVT-TKPTIGFN--VETVPY--KNLKFQVWDLGGQTSIRPYWRCYYADTDAVI   90 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCcccc-cCCCCCcC--cccccc--ccccceeeEccCcccccHHHHHHhcccceEE
Confidence            377899999999999999998876554322 23444433  333333  6788999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH-----HHHHHcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISR-WLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK-----SLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~-----~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      ||+|-+|+........ ++.++.+..-.+..+++++||.|....  ....++.     +..+..-+.++++||.+|+|++
T Consensus        91 yVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~--~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld  168 (182)
T KOG0072|consen   91 YVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA--LTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLD  168 (182)
T ss_pred             EEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh--hhHHHHHHHhChHHHhhheeEEEeeccccccCCc
Confidence            9999999877666643 444554444455667788999998631  2222221     1122233669999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYS  179 (222)
Q Consensus       168 ~~~~~i~~~~~~  179 (222)
                      ..++|+.+.+.+
T Consensus       169 ~~~DWL~~~l~~  180 (182)
T KOG0072|consen  169 PAMDWLQRPLKS  180 (182)
T ss_pred             HHHHHHHHHHhc
Confidence            999999987754

>PRK12736 elongation factor Tu; Reviewed

Probab=99.74  E-value=4.9e-17  Score=136.31  Aligned_cols=148  Identities=17%  Similarity=0.132  Sum_probs=99.2

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC--------------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP--------------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      ..+.++|+++|+.++|||||+++|++.....              ......+++.......+......+.++|+||+..|
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADY   88 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHH
Confidence            5567999999999999999999998632100              01112344555555666555667889999999988


Q ss_pred             hhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC---HHHHHHHHHHcC--
Q 040481           79 RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNVS---TEEGKSLAEAEG--  152 (222)
Q Consensus        79 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~~--  152 (222)
                      .......+..+|++++|+|+.++..-. ..+.+..+..   .++| +++++||+|+.+.....   .+++..+....+  
T Consensus        89 ~~~~~~~~~~~d~~llVvd~~~g~~~~-t~~~~~~~~~---~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~  164 (394)
T PRK12736         89 VKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLARQ---VGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFP  164 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHH---cCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCC
Confidence            777777778999999999998753211 1233333333   3467 56789999987432221   123444444443  


Q ss_pred             ---CeEEEEccCCCC
Q 040481          153 ---LFFMETSALDST  164 (222)
Q Consensus       153 ---~~~~~~sa~~~~  164 (222)
                         ++++++||.+|.
T Consensus       165 ~~~~~ii~vSa~~g~  179 (394)
T PRK12736        165 GDDIPVIRGSALKAL  179 (394)
T ss_pred             cCCccEEEeeccccc
Confidence               679999999983

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.74  E-value=1.2e-17  Score=140.15  Aligned_cols=166  Identities=25%  Similarity=0.293  Sum_probs=124.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      -...+||+++|+.|+||||||-+|....+.++-++-...  ......+....+...++|++..+.-.......++.+|++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~--i~IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi   83 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPR--ILIPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVI   83 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhccccccccCCc--cccCCccCcCcCceEEEecccccchhHHHHHHHhhcCEE
Confidence            345689999999999999999999999887654332110  011122333455678999987666666777889999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHH-HHHHHHHcC-Ce-EEEEccCCCCCH
Q 040481           93 LIVYDITRRTTFDSI-SRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEE-GKSLAEAEG-LF-FMETSALDSTNV  166 (222)
Q Consensus        93 i~v~d~~~~~s~~~~-~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~-~~~~~~~~~-~~-~~~~sa~~~~~i  166 (222)
                      .+||+++++.+++.+ ..|+..+++...  ..+|+|+||||+|..+......+. ...++..+. +. +++|||++-.++
T Consensus        84 ~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~  163 (625)
T KOG1707|consen   84 CLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANV  163 (625)
T ss_pred             EEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhh
Confidence            999999999999999 779999988764  569999999999997644443333 333444432 33 899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYSN  180 (222)
Q Consensus       167 ~~~~~~i~~~~~~~  180 (222)
                      .++|...-..+++.
T Consensus       164 ~e~fYyaqKaVihP  177 (625)
T KOG1707|consen  164 SELFYYAQKAVIHP  177 (625)
T ss_pred             Hhhhhhhhheeecc
Confidence            99999776665543

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.74  E-value=8.1e-17  Score=126.00  Aligned_cols=113  Identities=17%  Similarity=0.183  Sum_probs=81.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCC-------------C---CCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPH-------------S---KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV   81 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~-------------~---~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   81 (222)
                      +|+++|+.++|||||+++|+.......             +   ....+..+......+......+.+|||||+..+...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            589999999999999999976421100             0   011223344444444445677899999999999888


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      +..+++.+|++++|+|+.++... ....++..+..   .++|+++++||+|+.
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~  129 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRA  129 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECcccc
Confidence            88899999999999999987543 33445555544   357999999999985

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.

>cd04167 Snu114p Snu114p subfamily

Probab=99.74  E-value=6e-17  Score=125.10  Aligned_cols=113  Identities=23%  Similarity=0.316  Sum_probs=80.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCC-----------------CCccceeEEEEEEE--E---CCeEEEEEEEeCCCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHS-----------------KATIGVEFQTQSME--I---DGKEVKAQIWDTAGQ   75 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~-----------------~~~~~~~~~~~~~~--~---~~~~~~~~i~D~~G~   75 (222)
                      +|+++|+.++|||||+++|+........                 ....+.++....+.  +   ++..+.+.+||+||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            6899999999999999999875432210                 01112222222222  2   345688999999999


Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ..+......++..+|++|+|+|+.+..++.. ..++..+..   .++|+++|+||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            9998888888999999999999988766533 344444332   347999999999975

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.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.73  E-value=2e-17  Score=128.24  Aligned_cols=149  Identities=17%  Similarity=0.151  Sum_probs=93.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCC---------------------------C--CCCccceeEEEEEEEECCeEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNP---------------------------H--SKATIGVEFQTQSMEIDGKEVKAQ   68 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~---------------------------~--~~~~~~~~~~~~~~~~~~~~~~~~   68 (222)
                      +|+++|+.++|||||+.+|+......                           .  .....+++.......+......+.
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~   80 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT   80 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence            48999999999999999996421100                           0  001123334444444444567788


Q ss_pred             EEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---H---HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC--CCCC
Q 040481           69 IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---F---DSISRWLDELKTHSDTTVARMLVGNKCDLESI--RNVS  140 (222)
Q Consensus        69 i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~--~~~~  140 (222)
                      +||+||+..+...+...+..+|++|+|+|++++..   |   ......+......  ...|+++++||+|+...  ....
T Consensus        81 liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~  158 (219)
T cd01883          81 ILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL--GVKQLIVAVNKMDDVTVNWSEER  158 (219)
T ss_pred             EEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc--CCCeEEEEEEccccccccccHHH
Confidence            99999998887777777888999999999988521   1   1112222222221  22578889999998731  1111


Q ss_pred             H----HHHHHHHHHc-----CCeEEEEccCCCCCHHH
Q 040481          141 T----EEGKSLAEAE-----GLFFMETSALDSTNVKS  168 (222)
Q Consensus       141 ~----~~~~~~~~~~-----~~~~~~~sa~~~~~i~~  168 (222)
                      .    +++..+....     +++++++||++|.|+++
T Consensus       159 ~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~~  195 (219)
T cd01883         159 YDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLIE  195 (219)
T ss_pred             HHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCCc
Confidence            1    1222233333     36799999999999873

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

>PRK12735 elongation factor Tu; Reviewed

Probab=99.73  E-value=7.5e-17  Score=135.26  Aligned_cols=149  Identities=15%  Similarity=0.148  Sum_probs=98.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcC-------C----C---CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEF-------N----P---HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~-------~----~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      ..+.++|+++|++++|||||+++|++...       .    .   ......+++.......+......+.|+||||+..|
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADY   88 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHH
Confidence            45679999999999999999999986210       0    0   01112344455555555555667889999999888


Q ss_pred             hhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCC---CHHHHHHHHHHc---
Q 040481           79 RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM-LVGNKCDLESIRNV---STEEGKSLAEAE---  151 (222)
Q Consensus        79 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-iv~nK~Dl~~~~~~---~~~~~~~~~~~~---  151 (222)
                      .......+..+|++++|+|+.++.. ....+.+..+..   .++|.+ +++||+|+.+....   ...++..+....   
T Consensus        89 ~~~~~~~~~~aD~~llVvda~~g~~-~qt~e~l~~~~~---~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~  164 (396)
T PRK12735         89 VKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFP  164 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCC
Confidence            7777777889999999999987532 122233333332   446766 57999999642221   112344444443   


Q ss_pred             --CCeEEEEccCCCCC
Q 040481          152 --GLFFMETSALDSTN  165 (222)
Q Consensus       152 --~~~~~~~sa~~~~~  165 (222)
                        +++++++||.+|.+
T Consensus       165 ~~~~~ii~~Sa~~g~n  180 (396)
T PRK12735        165 GDDTPIIRGSALKALE  180 (396)
T ss_pred             cCceeEEecchhcccc
Confidence              36799999999853

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.73  E-value=7e-17  Score=138.59  Aligned_cols=154  Identities=17%  Similarity=0.165  Sum_probs=119.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh------hhhHHHhh--c
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF------RAVTSAYY--R   87 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------~~~~~~~~--~   87 (222)
                      ..+|+++|+|+||||||+|+|++........|..+.+.......+.+..  ++++|.||.-.+      +...++++  .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~--i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHE--IEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCce--EEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            3579999999999999999999998888888888888888888887766  679999993221      23334444  4


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      .+|++|-|+|+++.+-      -+....+..+.++|++++.|+.|......+. -+.+.+.+.+|+|+++++|++|.|++
T Consensus        81 ~~D~ivnVvDAtnLeR------nLyltlQLlE~g~p~ilaLNm~D~A~~~Gi~-ID~~~L~~~LGvPVv~tvA~~g~G~~  153 (653)
T COG0370          81 KPDLIVNVVDATNLER------NLYLTLQLLELGIPMILALNMIDEAKKRGIR-IDIEKLSKLLGVPVVPTVAKRGEGLE  153 (653)
T ss_pred             CCCEEEEEcccchHHH------HHHHHHHHHHcCCCeEEEeccHhhHHhcCCc-ccHHHHHHHhCCCEEEEEeecCCCHH
Confidence            5699999999998753      2222233334667999999999987654443 34567899999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          168 SAFEIVIREIY  178 (222)
Q Consensus       168 ~~~~~i~~~~~  178 (222)
                      ++.+.+.+...
T Consensus       154 ~l~~~i~~~~~  164 (653)
T COG0370         154 ELKRAIIELAE  164 (653)
T ss_pred             HHHHHHHHhcc
Confidence            99998876433

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.73  E-value=2e-16  Score=125.08  Aligned_cols=159  Identities=21%  Similarity=0.193  Sum_probs=113.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc-ch--------hhhhHHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ-ER--------FRAVTSAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-~~--------~~~~~~~~   85 (222)
                      ..+.|+|.|.|+||||||++++++........|.++-.+.+.++...  +..++++||||. ++        -.....+.
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~--~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL  244 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERG--YLRIQVIDTPGLLDRPLEERNEIERQAILAL  244 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecC--CceEEEecCCcccCCChHHhcHHHHHHHHHH
Confidence            34789999999999999999999988776667776777777776554  456789999992 11        11112222


Q ss_pred             hcCCCEEEEEEECC--ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           86 YRGAVGALIVYDIT--RRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        86 ~~~~d~vi~v~d~~--~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      -+-.++|+|+||.+  ++.+.+....++..+.....  .|+++|.||.|+.+...+...+.. +...-+.....+++..+
T Consensus       245 ~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~~~~~~~~-~~~~~~~~~~~~~~~~~  321 (346)
T COG1084         245 RHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEKLEEIEAS-VLEEGGEEPLKISATKG  321 (346)
T ss_pred             HHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhHHHHHHHH-HHhhccccccceeeeeh
Confidence            33457889999995  57888888899999888765  799999999998754444332222 33333444777888888


Q ss_pred             CCHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIY  178 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~  178 (222)
                      .+++.+-..+...+.
T Consensus       322 ~~~d~~~~~v~~~a~  336 (346)
T COG1084         322 CGLDKLREEVRKTAL  336 (346)
T ss_pred             hhHHHHHHHHHHHhh
Confidence            888876665555433

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.72  E-value=1.1e-16  Score=134.21  Aligned_cols=156  Identities=16%  Similarity=0.116  Sum_probs=102.4

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcC------C------C--CCCCccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEF------N------P--HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~------~------~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      ....+.++|+++|+.++|||||+++|++...      .      .  ......+++.....+.++.....+.+||+||++
T Consensus         7 ~~~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~   86 (394)
T TIGR00485         7 ERTKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHA   86 (394)
T ss_pred             cCCCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchH
Confidence            3456779999999999999999999974310      0      0  001123444555566666666778899999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCCC---HHHHHHHHHHcC
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM-LVGNKCDLESIRNVS---TEEGKSLAEAEG  152 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-iv~nK~Dl~~~~~~~---~~~~~~~~~~~~  152 (222)
                      .|..........+|++++|+|+.++..-.. .+.+..+..   .++|.+ +++||+|+.+.....   .+++..+....+
T Consensus        87 ~f~~~~~~~~~~~D~~ilVvda~~g~~~qt-~e~l~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~  162 (394)
T TIGR00485        87 DYVKNMITGAAQMDGAILVVSATDGPMPQT-REHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYD  162 (394)
T ss_pred             HHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcC
Confidence            887766667788999999999988532221 223333332   346765 579999987532211   224455555543


Q ss_pred             -----CeEEEEccCCCC-CHHHHH
Q 040481          153 -----LFFMETSALDST-NVKSAF  170 (222)
Q Consensus       153 -----~~~~~~sa~~~~-~i~~~~  170 (222)
                           ++++++||.++. +..+++
T Consensus       163 ~~~~~~~ii~vSa~~g~~g~~~~~  186 (394)
T TIGR00485       163 FPGDDTPIIRGSALKALEGDAEWE  186 (394)
T ss_pred             CCccCccEEECccccccccCCchh
Confidence                 789999999874 333333

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.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.72  E-value=1.8e-16  Score=124.51  Aligned_cols=154  Identities=18%  Similarity=0.185  Sum_probs=113.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hhhhHHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FRAVTSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   90 (222)
                      .|.+||.|++|||||+++|.+........+.++..-....+.+++.. .+.+-|+||.-.       ........+.+++
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~-q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~  276 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFS-QITVADIPGIIEGAHMNKGLGYKFLRHIERCK  276 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccc-eeEeccCccccccccccCcccHHHHHHHHhhc
Confidence            57899999999999999999887655555555666666666665533 378999999422       1222344578999


Q ss_pred             EEEEEEECCCh---hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEEccCCCC
Q 040481           91 GALIVYDITRR---TTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDST  164 (222)
Q Consensus        91 ~vi~v~d~~~~---~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~  164 (222)
                      .++||+|++.+   ..|+.+..+..+++.+.+  ...|.+||+||+|+++   -......+++....-+ ++++||+.++
T Consensus       277 ~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~e---ae~~~l~~L~~~lq~~~V~pvsA~~~e  353 (366)
T KOG1489|consen  277 GLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPE---AEKNLLSSLAKRLQNPHVVPVSAKSGE  353 (366)
T ss_pred             eEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchh---HHHHHHHHHHHHcCCCcEEEeeecccc
Confidence            99999999988   777777776666655543  5679999999999852   1122345667776555 9999999999


Q ss_pred             CHHHHHHHHHH
Q 040481          165 NVKSAFEIVIR  175 (222)
Q Consensus       165 ~i~~~~~~i~~  175 (222)
                      ++.++++-|-+
T Consensus       354 gl~~ll~~lr~  364 (366)
T KOG1489|consen  354 GLEELLNGLRE  364 (366)
T ss_pred             chHHHHHHHhh
Confidence            99998875543

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.71  E-value=3.1e-16  Score=121.68  Aligned_cols=153  Identities=15%  Similarity=0.184  Sum_probs=95.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCc-----------------------cceeEEEEE-------------EEEC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKAT-----------------------IGVEFQTQS-------------MEID   61 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~-----------------------~~~~~~~~~-------------~~~~   61 (222)
                      ||+++|+.++|||||+++|..+.+.......                       .+.+.....             ..+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            5899999999999999999875543321100                       011100000             0111


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhc--CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYR--GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV  139 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~  139 (222)
                      .....+.++|+||+..+.......+.  .+|++++|+|+..+.. .....++..+..   .++|+++|+||+|+.+....
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~---~~ip~ivvvNK~D~~~~~~~  156 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALA---LNIPVFVVVTKIDLAPANIL  156 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEECccccCHHHH
Confidence            12356789999999888665554454  6899999999987643 222334444433   44799999999998643222


Q ss_pred             CH--HHHHHHHH--------------------------HcCCeEEEEccCCCCCHHHHHHHHH
Q 040481          140 ST--EEGKSLAE--------------------------AEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus       140 ~~--~~~~~~~~--------------------------~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ..  +++..+..                          ...++++.+||.+|+|++++...|.
T Consensus       157 ~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         157 QETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             HHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence            11  11222211                          1134799999999999999887553

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

>CHL00071 tufA elongation factor Tu

Probab=99.70  E-value=4.3e-16  Score=131.21  Aligned_cols=150  Identities=16%  Similarity=0.102  Sum_probs=100.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC--------------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP--------------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      ..+.++|+++|++++|||||+++|++.....              ......+++.......+......+.++|+||+..+
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~   88 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADY   88 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHH
Confidence            5566999999999999999999998742110              01111344444444555555567789999999888


Q ss_pred             hhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC---HHHHHHHHHHcC--
Q 040481           79 RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNVS---TEEGKSLAEAEG--  152 (222)
Q Consensus        79 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~~--  152 (222)
                      .......+..+|++++|+|+..+.. ....+.+..+..   .++| +++++||+|+.+.....   .+++..+....+  
T Consensus        89 ~~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~---~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~  164 (409)
T CHL00071         89 VKNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAKQ---VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFP  164 (409)
T ss_pred             HHHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            7777777889999999999987643 222233333332   3468 66789999997532211   123444444432  


Q ss_pred             ---CeEEEEccCCCCCH
Q 040481          153 ---LFFMETSALDSTNV  166 (222)
Q Consensus       153 ---~~~~~~sa~~~~~i  166 (222)
                         ++++++||.+|.++
T Consensus       165 ~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        165 GDDIPIVSGSALLALEA  181 (409)
T ss_pred             CCcceEEEcchhhcccc
Confidence               68999999998754

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.70  E-value=7.4e-16  Score=114.56  Aligned_cols=161  Identities=17%  Similarity=0.179  Sum_probs=104.8

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc----------chhhh
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ----------ERFRA   80 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~   80 (222)
                      -|.+..+.|+++|.++||||||||+|++...-.-...++|.+.....+.+++.   +.++|.||-          +.+..
T Consensus        19 ~P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~   95 (200)
T COG0218          19 YPEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKK   95 (200)
T ss_pred             CCCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHH
Confidence            35556789999999999999999999997632222344455566666666553   669999992          33444


Q ss_pred             hHHHhhcC---CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--HHHH-HHHHHcCCe
Q 040481           81 VTSAYYRG---AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST--EEGK-SLAEAEGLF  154 (222)
Q Consensus        81 ~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~--~~~~-~~~~~~~~~  154 (222)
                      +...|+..   ..++++++|+..+-.-.. .+.+..+..   .++|++|++||+|.....+...  ..+. .+.......
T Consensus        96 ~i~~YL~~R~~L~~vvlliD~r~~~~~~D-~em~~~l~~---~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~~~~  171 (200)
T COG0218          96 LIEEYLEKRANLKGVVLLIDARHPPKDLD-REMIEFLLE---LGIPVIVVLTKADKLKKSERNKQLNKVAEELKKPPPDD  171 (200)
T ss_pred             HHHHHHhhchhheEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCeEEEEEccccCChhHHHHHHHHHHHHhcCCCCcc
Confidence            55555533   468899999987744221 123333333   5689999999999875433322  1111 222222222


Q ss_pred             --EEEEccCCCCCHHHHHHHHHHHHH
Q 040481          155 --FMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       155 --~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                        ++..|+.++.|++++...|.+.+.
T Consensus       172 ~~~~~~ss~~k~Gi~~l~~~i~~~~~  197 (200)
T COG0218         172 QWVVLFSSLKKKGIDELKAKILEWLK  197 (200)
T ss_pred             ceEEEEecccccCHHHHHHHHHHHhh
Confidence              777899999999998887776554

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.69  E-value=1.5e-15  Score=118.82  Aligned_cols=161  Identities=19%  Similarity=0.245  Sum_probs=108.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch------h------h
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER------F------R   79 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------~------~   79 (222)
                      ...+.+.|+++|.|++|||||.|.+.+......+....++......+ +.....++.|+||||.-.      +      .
T Consensus        68 e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi-~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~l  146 (379)
T KOG1423|consen   68 EAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGI-ITSGETQLVFYDTPGLVSKKMHRRHHLMMSVL  146 (379)
T ss_pred             hcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEE-EecCceEEEEecCCcccccchhhhHHHHHHhh
Confidence            45677999999999999999999999999887776665555444444 445567889999999321      1      1


Q ss_pred             hhHHHhhcCCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-------------CC---HH
Q 040481           80 AVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESIRN-------------VS---TE  142 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~-------------~~---~~  142 (222)
                      .........||.+++|+|+++...  .+ ...+..+..+  ..+|.++|+||.|......             +.   .+
T Consensus       147 q~~~~a~q~AD~vvVv~Das~tr~--~l~p~vl~~l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~  222 (379)
T KOG1423|consen  147 QNPRDAAQNADCVVVVVDASATRT--PLHPRVLHMLEEY--SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLE  222 (379)
T ss_pred             hCHHHHHhhCCEEEEEEeccCCcC--ccChHHHHHHHHH--hcCCceeeccchhcchhhhHHhhhHHhccccccchhhhh
Confidence            123345688999999999986321  11 2233444444  3478899999999743221             11   11


Q ss_pred             HHHHHHHHc---------CC----eEEEEccCCCCCHHHHHHHHHHHH
Q 040481          143 EGKSLAEAE---------GL----FFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       143 ~~~~~~~~~---------~~----~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ....|...-         ++    .+|.+||++|+||+++-++|+.++
T Consensus       223 v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa  270 (379)
T KOG1423|consen  223 VQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQA  270 (379)
T ss_pred             HHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcC
Confidence            111221111         22    289999999999999999888754

>cd04169 RF3 RF3 subfamily

Probab=99.69  E-value=1.2e-15  Score=121.28  Aligned_cols=115  Identities=17%  Similarity=0.215  Sum_probs=81.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCC-----------------C---CccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHS-----------------K---ATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~-----------------~---~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      -+|+++|++++|||||+++|+........                 .   ...+.++......+....+.+.+|||||+.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            37999999999999999999753211000                 0   011333444455556667888999999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .|.......++.+|++|+|+|++++.. .....++.....   .++|+++++||+|+..
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~-~~~~~i~~~~~~---~~~P~iivvNK~D~~~  137 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVE-PQTRKLFEVCRL---RGIPIITFINKLDREG  137 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCcc-HHHHHHHHHHHh---cCCCEEEEEECCccCC
Confidence            888777778899999999999987643 222334443332   4579999999999864

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.69  E-value=4.2e-16  Score=120.51  Aligned_cols=113  Identities=23%  Similarity=0.229  Sum_probs=78.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCC----------------CCCccceeEEEEEEEEC--------CeEEEEEEEeCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPH----------------SKATIGVEFQTQSMEID--------GKEVKAQIWDTA   73 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~----------------~~~~~~~~~~~~~~~~~--------~~~~~~~i~D~~   73 (222)
                      +|+++|+.++|||||+.+|+.......                .....++........+.        +..+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            689999999999999999976432100                00111111122222333        347889999999


Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      |+..|.......++.+|++++|||+.++........+ ....   ..++|+++++||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l-~~~~---~~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVL-RQAL---KERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHH-HHHH---HcCCCEEEEEECCCcc
Confidence            9999999999999999999999999988664432222 2222   2457999999999975

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

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.69  E-value=2.1e-15  Score=126.27  Aligned_cols=155  Identities=17%  Similarity=0.189  Sum_probs=109.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC-eEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG-KEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      +.+-|++||+-..|||||+..+-...........++-.+.-..+..+. ..-.+.|+|||||+.|..+......-+|++|
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaI   83 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAI   83 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEE
Confidence            456799999999999999999987766544333333333333333331 2234679999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-------Hc--CCeEEEEccCCCC
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE-------AE--GLFFMETSALDST  164 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-------~~--~~~~~~~sa~~~~  164 (222)
                      +|++++|+--    .+....+......+.|++|++||+|..+..   ++....-..       .+  ...++++||++|+
T Consensus        84 LVVa~dDGv~----pQTiEAI~hak~a~vP~iVAiNKiDk~~~n---p~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~  156 (509)
T COG0532          84 LVVAADDGVM----PQTIEAINHAKAAGVPIVVAINKIDKPEAN---PDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGE  156 (509)
T ss_pred             EEEEccCCcc----hhHHHHHHHHHHCCCCEEEEEecccCCCCC---HHHHHHHHHHcCCCHhhcCCceEEEEeeccCCC
Confidence            9999999743    233334444445779999999999987422   222222222       22  2559999999999


Q ss_pred             CHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIRE  176 (222)
Q Consensus       165 ~i~~~~~~i~~~  176 (222)
                      |+++++..++-.
T Consensus       157 Gi~eLL~~ill~  168 (509)
T COG0532         157 GIDELLELILLL  168 (509)
T ss_pred             CHHHHHHHHHHH
Confidence            999999866553

>COG2262 HflX GTPases [General function prediction only]

Probab=99.68  E-value=2.2e-15  Score=122.53  Aligned_cols=162  Identities=19%  Similarity=0.150  Sum_probs=117.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc---------chhhhhHH
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ---------ERFRAVTS   83 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~   83 (222)
                      ....+.|.++|-.++|||||+|+|++........-..+.+-....+.+.+ +..+.+-||.|-         +.|.+.. 
T Consensus       189 ~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTL-  266 (411)
T COG2262         189 RSGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTL-  266 (411)
T ss_pred             ccCCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHH-
Confidence            45568999999999999999999997765544444445555556665654 455779999993         2233333 


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      .....+|+++.|+|++++.....+..-...+.......+|+|+|.||+|+......    ......... ..+.+||++|
T Consensus       267 EE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~~----~~~~~~~~~-~~v~iSA~~~  341 (411)
T COG2262         267 EEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEEI----LAELERGSP-NPVFISAKTG  341 (411)
T ss_pred             HHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchhh----hhhhhhcCC-CeEEEEeccC
Confidence            33577999999999999987777777777777776677999999999997643331    111112222 5889999999


Q ss_pred             CCHHHHHHHHHHHHHHHh
Q 040481          164 TNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~~~  181 (222)
                      +|++.+...|.+.+....
T Consensus       342 ~gl~~L~~~i~~~l~~~~  359 (411)
T COG2262         342 EGLDLLRERIIELLSGLR  359 (411)
T ss_pred             cCHHHHHHHHHHHhhhcc
Confidence            999999998888766443

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.67  E-value=2.9e-15  Score=114.34  Aligned_cols=159  Identities=15%  Similarity=0.187  Sum_probs=95.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccce---eEEEEEEEECCeEEEEEEEeCCCcchhhhhH-----HHhhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGV---EFQTQSMEIDGKEVKAQIWDTAGQERFRAVT-----SAYYRG   88 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----~~~~~~   88 (222)
                      ++|+++|++|+|||||+|+|++.........+.+.   ......+... ....+.+||+||........     ...+..
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHP-KFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecC-CCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            68999999999999999999986543322221111   1111111111 12357899999975432222     223677


Q ss_pred             CCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----C---CHH----HHHHHH----HHc-
Q 040481           89 AVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESIRN----V---STE----EGKSLA----EAE-  151 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~----~---~~~----~~~~~~----~~~-  151 (222)
                      +|+++++.+.  +  |... ..|+..+...   +.|+++|+||+|+.....    .   ..+    ..++.+    ... 
T Consensus        81 ~d~~l~v~~~--~--~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~  153 (197)
T cd04104          81 YDFFIIISST--R--FSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAG  153 (197)
T ss_pred             cCEEEEEeCC--C--CCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcC
Confidence            8998887542  2  3333 4456666553   468999999999842111    0   111    111111    121 


Q ss_pred             --CCeEEEEccC--CCCCHHHHHHHHHHHHHHHhhh
Q 040481          152 --GLFFMETSAL--DSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       152 --~~~~~~~sa~--~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                        ..++|.+|+.  .+.++.++.+.++..+-+++..
T Consensus       154 ~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~~  189 (197)
T cd04104         154 VSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHKRH  189 (197)
T ss_pred             CCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHHHH
Confidence              2358999998  5789999999999888776544

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>PRK00049 elongation factor Tu; Reviewed

Probab=99.67  E-value=2.2e-15  Score=126.37  Aligned_cols=149  Identities=15%  Similarity=0.151  Sum_probs=98.6

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCC---C-----------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFN---P-----------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~---~-----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      ...+.++|+++|+.++|||||+++|++....   .           ......+++.......+......+.++||||+..
T Consensus         8 ~~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~   87 (396)
T PRK00049          8 RTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHAD   87 (396)
T ss_pred             CCCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHH
Confidence            3456799999999999999999999873110   0           0011234455555555655566788999999988


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCCC---HHHHHHHHHHc--
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM-LVGNKCDLESIRNVS---TEEGKSLAEAE--  151 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-iv~nK~Dl~~~~~~~---~~~~~~~~~~~--  151 (222)
                      |.......+..+|++++|+|+.++.. ....+.+..+..   .++|.+ +++||+|+.+.....   ..++..+....  
T Consensus        88 f~~~~~~~~~~aD~~llVVDa~~g~~-~qt~~~~~~~~~---~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~  163 (396)
T PRK00049         88 YVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDF  163 (396)
T ss_pred             HHHHHHhhhccCCEEEEEEECCCCCc-hHHHHHHHHHHH---cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCC
Confidence            87777777899999999999987633 222333344433   346876 579999997422211   12233333332  


Q ss_pred             ---CCeEEEEccCCCC
Q 040481          152 ---GLFFMETSALDST  164 (222)
Q Consensus       152 ---~~~~~~~sa~~~~  164 (222)
                         +++++++||.++.
T Consensus       164 ~~~~~~iv~iSa~~g~  179 (396)
T PRK00049        164 PGDDTPIIRGSALKAL  179 (396)
T ss_pred             CccCCcEEEeeccccc
Confidence               4689999999875

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.67  E-value=5e-16  Score=120.14  Aligned_cols=162  Identities=18%  Similarity=0.269  Sum_probs=101.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeEEEEEEEeCCCcchhh-----hhHHHhhcCCCE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-----AVTSAYYRGAVG   91 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----~~~~~~~~~~d~   91 (222)
                      ||+++|+.+|||||..+.+.++..+.+.. -..+.+.....+.+. ..+.+++||+||+..+.     ......++.+.+
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~-~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~   79 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFL-SFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGV   79 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECT-TSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecC-CCcEEEEEEcCCccccccccccccHHHHHhccCE
Confidence            79999999999999999998776543322 112334444444333 24578999999986543     346778899999


Q ss_pred             EEEEEECCChhhHHHHHH---HHHHHHhcCCCCCcEEEEEeCCCCCcCC--CC----CHHHHHHHHHHcC---CeEEEEc
Q 040481           92 ALIVYDITRRTTFDSISR---WLDELKTHSDTTVARMLVGNKCDLESIR--NV----STEEGKSLAEAEG---LFFMETS  159 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~---~~~~i~~~~~~~~p~iiv~nK~Dl~~~~--~~----~~~~~~~~~~~~~---~~~~~~s  159 (222)
                      +|||||+...+-.+.+..   .+..+.+.. +++.+.|+++|+|+..+.  ..    ..+.+.+.+...+   +.++.+|
T Consensus        80 LIyV~D~qs~~~~~~l~~~~~~i~~l~~~s-p~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TS  158 (232)
T PF04670_consen   80 LIYVFDAQSDDYDEDLAYLSDCIEALRQYS-PNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTS  158 (232)
T ss_dssp             EEEEEETT-STCHHHHHHHHHHHHHHHHHS-TT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-
T ss_pred             EEEEEEcccccHHHHHHHHHHHHHHHHHhC-CCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEecc
Confidence            999999984443344443   334444444 567889999999985321  11    1122333444445   7799999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHHhh
Q 040481          160 ALDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      ..+. .+-+.+..+++.+..+..
T Consensus       159 I~D~-Sly~A~S~Ivq~LiP~~~  180 (232)
T PF04670_consen  159 IWDE-SLYEAWSKIVQKLIPNLS  180 (232)
T ss_dssp             TTST-HHHHHHHHHHHTTSTTHC
T ss_pred             CcCc-HHHHHHHHHHHHHcccHH
Confidence            9995 699999999998776544

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>cd01850 CDC_Septin CDC/Septin

Probab=99.66  E-value=3.5e-15  Score=119.27  Aligned_cols=143  Identities=16%  Similarity=0.210  Sum_probs=92.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC----------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh---h
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH----------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA---V   81 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~   81 (222)
                      ..++|+++|++|+|||||+|+|++..+...          ..++.+.......+..++..+.+.+|||||......   .
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhh
Confidence            468999999999999999999998876443          233334444445555677788999999999432110   0


Q ss_pred             H----------------------H-Hhhc--CCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           82 T----------------------S-AYYR--GAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        82 ~----------------------~-~~~~--~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |                      + ..+.  .+|+++|+++.+... +... ...++.+..    .+|+++|+||+|+..
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~D~~~lk~l~~----~v~vi~VinK~D~l~  157 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPLDIEFMKRLSK----RVNIIPVIAKADTLT  157 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHHHHHHHHHhc----cCCEEEEEECCCcCC
Confidence            0                      0 1122  467888888876521 1111 223333322    589999999999854


Q ss_pred             C--CCCCHHHHHHHHHHcCCeEEEEccCC
Q 040481          136 I--RNVSTEEGKSLAEAEGLFFMETSALD  162 (222)
Q Consensus       136 ~--~~~~~~~~~~~~~~~~~~~~~~sa~~  162 (222)
                      .  .......+.+.+..+++++++.....
T Consensus       158 ~~e~~~~k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         158 PEELKEFKQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             HHHHHHHHHHHHHHHHHcCCceECCCCCc
Confidence            2  22334456677888899988876543

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.66  E-value=9.7e-16  Score=122.01  Aligned_cols=114  Identities=22%  Similarity=0.203  Sum_probs=77.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCC----------------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPH----------------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV   81 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   81 (222)
                      +|+++|++++|||||+++|+.......                .....+++.......+.....++.+|||||+..+...
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~   80 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIE   80 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHH
Confidence            589999999999999999974211000                0011233333333333334567889999999888888


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      +...++.+|++|+|+|+.++..-. ....+..+..   .++|+++++||+|+..
T Consensus        81 ~~~~l~~aD~ailVVDa~~g~~~~-t~~~~~~~~~---~~~p~ivviNK~D~~~  130 (270)
T cd01886          81 VERSLRVLDGAVAVFDAVAGVEPQ-TETVWRQADR---YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHHHHcCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            888999999999999998764311 1233333333   4579999999999864

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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.66  E-value=1.9e-15  Score=128.25  Aligned_cols=152  Identities=18%  Similarity=0.178  Sum_probs=103.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-----------------------------CCCCccceeEEEEEEEECCe
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP-----------------------------HSKATIGVEFQTQSMEIDGK   63 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   63 (222)
                      ..+.++|+++|+.++|||||+.+|+......                             ......+.++......+...
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~   83 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETT   83 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCC
Confidence            4567999999999999999999886421100                             00111244455555556666


Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHH-------HHHHHHHHHHhcCCCCCc-EEEEEeCCCCCc
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFD-------SISRWLDELKTHSDTTVA-RMLVGNKCDLES  135 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~-------~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~  135 (222)
                      .+.+.++|+||++.|.......+..+|++|+|+|+.++. |+       ...+.+..+..   .++| +++++||+|+.+
T Consensus        84 ~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~-~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~~  159 (447)
T PLN00043         84 KYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGG-FEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDATT  159 (447)
T ss_pred             CEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCc-eecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCCc
Confidence            778899999999999988888899999999999998742 21       22222222222   3454 577899999862


Q ss_pred             CC--C----CCHHHHHHHHHHcC-----CeEEEEccCCCCCHHH
Q 040481          136 IR--N----VSTEEGKSLAEAEG-----LFFMETSALDSTNVKS  168 (222)
Q Consensus       136 ~~--~----~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  168 (222)
                      ..  .    ...+++..+....+     ++++++||.+|+|+.+
T Consensus       160 ~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        160 PKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            11  1    11334555666554     6799999999999864

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.66  E-value=2.3e-15  Score=128.69  Aligned_cols=154  Identities=19%  Similarity=0.157  Sum_probs=98.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC------------C-------------------CccceeEEEEEEEEC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS------------K-------------------ATIGVEFQTQSMEID   61 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~------------~-------------------~~~~~~~~~~~~~~~   61 (222)
                      ....++|+++|+.++|||||+.+|+........            .                   ...++++......+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            456699999999999999999999754321100            0                   011233344444445


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST  141 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~  141 (222)
                      .....+.||||||+..|.......+..+|++++|+|+.++..-.....+ ..+....  ..|+++++||+|+.+......
T Consensus       104 ~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~-~l~~~lg--~~~iIvvvNKiD~~~~~~~~~  180 (474)
T PRK05124        104 TEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS-FIATLLG--IKHLVVAVNKMDLVDYSEEVF  180 (474)
T ss_pred             cCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH-HHHHHhC--CCceEEEEEeeccccchhHHH
Confidence            5566788999999988866656667999999999999876321111111 1122111  136788999999974222111


Q ss_pred             HH----HHHHHHHc----CCeEEEEccCCCCCHHHH
Q 040481          142 EE----GKSLAEAE----GLFFMETSALDSTNVKSA  169 (222)
Q Consensus       142 ~~----~~~~~~~~----~~~~~~~sa~~~~~i~~~  169 (222)
                      ++    ...+....    .++++++||++|.|+.++
T Consensus       181 ~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        181 ERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            21    22223332    477999999999999875

>PLN03127 Elongation factor Tu; Provisional

Probab=99.66  E-value=3.6e-15  Score=126.40  Aligned_cols=160  Identities=15%  Similarity=0.120  Sum_probs=100.0

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcC------cCCC--------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARN------EFNP--------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~------~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      ...+.++|+++|+.++|||||+++|.+.      ....        ......+++.......+.....++.++||||+..
T Consensus        57 ~~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~  136 (447)
T PLN03127         57 RTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHAD  136 (447)
T ss_pred             cCCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccc
Confidence            3456789999999999999999999732      1000        0011134445555566666667788999999988


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcE-EEEEeCCCCCcCCCCCH---HHHHHHHHHc--
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR-MLVGNKCDLESIRNVST---EEGKSLAEAE--  151 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-iiv~nK~Dl~~~~~~~~---~~~~~~~~~~--  151 (222)
                      |..........+|++++|+|+.++..- ...+.+..+..   .++|. ++++||+|+.+......   .++.++....  
T Consensus       137 f~~~~~~g~~~aD~allVVda~~g~~~-qt~e~l~~~~~---~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~  212 (447)
T PLN03127        137 YVKNMITGAAQMDGGILVVSAPDGPMP-QTKEHILLARQ---VGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKF  212 (447)
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCCCch-hHHHHHHHHHH---cCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCC
Confidence            876666667789999999999876431 12223333332   34684 67899999974222111   1222333222  


Q ss_pred             ---CCeEEEEccC---CCCC-------HHHHHHHHHH
Q 040481          152 ---GLFFMETSAL---DSTN-------VKSAFEIVIR  175 (222)
Q Consensus       152 ---~~~~~~~sa~---~~~~-------i~~~~~~i~~  175 (222)
                         .++++++|+.   ++.|       +..+++.+..
T Consensus       213 ~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~  249 (447)
T PLN03127        213 PGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDE  249 (447)
T ss_pred             CCCcceEEEeccceeecCCCcccccchHHHHHHHHHH
Confidence               3678888876   4544       4555554443

>PLN03126 Elongation factor Tu; Provisional

Probab=99.66  E-value=2.2e-15  Score=128.38  Aligned_cols=151  Identities=16%  Similarity=0.098  Sum_probs=100.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcC------CC--------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEF------NP--------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~------~~--------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      ...+.++|+++|+.++|||||+++|+....      ..        ......+++.......++.....+.++|+||+..
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~  156 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHAD  156 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHH
Confidence            356679999999999999999999985211      00        0112234444444444544556778999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHc--
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNV---STEEGKSLAEAE--  151 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~--  151 (222)
                      |.......+..+|++++|+|+.++..-. ..+++..+..   .++| +++++||+|+.+....   ..+++..+....  
T Consensus       157 f~~~~~~g~~~aD~ailVVda~~G~~~q-t~e~~~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~  232 (478)
T PLN03126        157 YVKNMITGAAQMDGAILVVSGADGPMPQ-TKEHILLAKQ---VGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEF  232 (478)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCcHH-HHHHHHHHHH---cCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCC
Confidence            9877778888999999999998764322 2333333433   3467 6778999999752221   112334444432  


Q ss_pred             ---CCeEEEEccCCCCCH
Q 040481          152 ---GLFFMETSALDSTNV  166 (222)
Q Consensus       152 ---~~~~~~~sa~~~~~i  166 (222)
                         +++++++|+.++.++
T Consensus       233 ~~~~~~~vp~Sa~~g~n~  250 (478)
T PLN03126        233 PGDDIPIISGSALLALEA  250 (478)
T ss_pred             CcCcceEEEEEccccccc
Confidence               577999999988543

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.65  E-value=3.3e-15  Score=118.69  Aligned_cols=163  Identities=20%  Similarity=0.128  Sum_probs=111.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hhhhHHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FRAVTSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   90 (222)
                      -|.+||.|++|||||++++++-.......|.++..-....+... ..-.|.+-|+||.-+       +.......+.++-
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~-~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~  239 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVD-GGESFVVADIPGLIEGASEGVGLGLRFLRHIERTR  239 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEec-CCCcEEEecCcccccccccCCCccHHHHHHHHhhh
Confidence            46789999999999999998876544444444444344444442 233477999999422       1222334578899


Q ss_pred             EEEEEEECCChh---hHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEE-EEccCCCC
Q 040481           91 GALIVYDITRRT---TFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFM-ETSALDST  164 (222)
Q Consensus        91 ~vi~v~d~~~~~---s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~sa~~~~  164 (222)
                      +++.|+|++..+   ..+.......++..+..  ...|.+||+||+|+....+...+....+....++..+ .+||.++.
T Consensus       240 vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~  319 (369)
T COG0536         240 VLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTRE  319 (369)
T ss_pred             eeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhccc
Confidence            999999998654   35555666667766654  5679999999999765444444444555555554422 29999999


Q ss_pred             CHHHHHHHHHHHHHHHh
Q 040481          165 NVKSAFEIVIREIYSNV  181 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~~  181 (222)
                      |+++++..+.+.+.+..
T Consensus       320 g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         320 GLDELLRALAELLEETK  336 (369)
T ss_pred             CHHHHHHHHHHHHHHhh
Confidence            99999998888777665

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.65  E-value=3.2e-15  Score=126.84  Aligned_cols=153  Identities=16%  Similarity=0.110  Sum_probs=100.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcC--CC---------------------------CCCCccceeEEEEEEEECCe
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEF--NP---------------------------HSKATIGVEFQTQSMEIDGK   63 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~--~~---------------------------~~~~~~~~~~~~~~~~~~~~   63 (222)
                      ..+.++|+++|+.++|||||+.+|+....  ..                           ......+.+.......+...
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~   83 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETP   83 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccC
Confidence            45678999999999999999999976211  00                           00011244445555556666


Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---H---HHHHHHHHHHHhcCCCCCc-EEEEEeCCCCC--
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---F---DSISRWLDELKTHSDTTVA-RMLVGNKCDLE--  134 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~--  134 (222)
                      ...+.|+|+||+..|.......+..+|++++|+|+.++..   |   ....+.+..+..   .++| +||++||+|..  
T Consensus        84 ~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~---~gi~~iiv~vNKmD~~~~  160 (446)
T PTZ00141         84 KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFT---LGVKQMIVCINKMDDKTV  160 (446)
T ss_pred             CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHH---cCCCeEEEEEEccccccc
Confidence            7788999999999998888888899999999999987631   1   122222223322   3455 56889999953  


Q ss_pred             cCCCCC----HHHHHHHHHHc-----CCeEEEEccCCCCCHHH
Q 040481          135 SIRNVS----TEEGKSLAEAE-----GLFFMETSALDSTNVKS  168 (222)
Q Consensus       135 ~~~~~~----~~~~~~~~~~~-----~~~~~~~sa~~~~~i~~  168 (222)
                      +..+-.    .+++..+....     +++++++|+.+|+|+.+
T Consensus       161 ~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        161 NYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            211111    12233333322     36799999999999864

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.65  E-value=2.9e-15  Score=126.06  Aligned_cols=150  Identities=19%  Similarity=0.156  Sum_probs=95.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCC-------------------------------CCccceeEEEEEEEECCeEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHS-------------------------------KATIGVEFQTQSMEIDGKEV   65 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   65 (222)
                      ++|+++|+.++|||||+.+|+........                               ....+++.......+.....
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~   80 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKR   80 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCe
Confidence            48999999999999999999643211000                               01112334444444444556


Q ss_pred             EEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH----
Q 040481           66 KAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST----  141 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~----  141 (222)
                      .+.++||||++.|.......+..+|++|+|+|+..+..-.....| ..+....  ..++++++||+|+.+......    
T Consensus        81 ~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~-~~~~~~~--~~~iivviNK~D~~~~~~~~~~~i~  157 (406)
T TIGR02034        81 KFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHS-YIASLLG--IRHVVLAVNKMDLVDYDEEVFENIK  157 (406)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHH-HHHHHcC--CCcEEEEEEecccccchHHHHHHHH
Confidence            788999999999876666778999999999999876432111222 2222221  135788999999874222111    


Q ss_pred             HHHHHHHHHc---CCeEEEEccCCCCCHHHH
Q 040481          142 EEGKSLAEAE---GLFFMETSALDSTNVKSA  169 (222)
Q Consensus       142 ~~~~~~~~~~---~~~~~~~sa~~~~~i~~~  169 (222)
                      ++...+....   +++++++||.+|+|+.+.
T Consensus       158 ~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~  188 (406)
T TIGR02034       158 KDYLAFAEQLGFRDVTFIPLSALKGDNVVSR  188 (406)
T ss_pred             HHHHHHHHHcCCCCccEEEeecccCCCCccc
Confidence            1222233333   357999999999999863

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).

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.65  E-value=2.6e-15  Score=119.94  Aligned_cols=145  Identities=21%  Similarity=0.245  Sum_probs=90.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCC------------------CccceeEEEEEEEECCeEEEEEEEeCCCcchhh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSK------------------ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   79 (222)
                      +|+++|++|+|||||+++|+.........                  ...+.......+.+  ..+.+.+|||||+..+.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~--~~~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEW--KGHKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEE--CCEEEEEEECcCHHHHH
Confidence            58999999999999999997533211000                  01111222223333  34668899999998887


Q ss_pred             hhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEE--E
Q 040481           80 AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFM--E  157 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~--~  157 (222)
                      ..+...+..+|++++|+|++++........| ..+.   ..++|+++++||+|+....  ..+....+...++.+++  .
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~---~~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~~  152 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLW-EFAD---EAGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPLQ  152 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHH---HcCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEEE
Confidence            7788889999999999999987654333333 2232   2457999999999987431  12233334444554433  3


Q ss_pred             EccCCCCCHHHHH
Q 040481          158 TSALDSTNVKSAF  170 (222)
Q Consensus       158 ~sa~~~~~i~~~~  170 (222)
                      ++..++.++..++
T Consensus       153 ip~~~~~~~~~~v  165 (268)
T cd04170         153 LPIGEGDDFKGVV  165 (268)
T ss_pred             ecccCCCceeEEE
Confidence            4455555544433

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

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.64  E-value=3.4e-15  Score=126.47  Aligned_cols=164  Identities=16%  Similarity=0.148  Sum_probs=104.1

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcC---CCCCCCccceeEEEEEE---------------EECC-----------
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEF---NPHSKATIGVEFQTQSM---------------EIDG-----------   62 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~---~~~~~~~~~~~~~~~~~---------------~~~~-----------   62 (222)
                      .....++|.++|+-..|||||+.+|++...   .++....++.+.-....               ....           
T Consensus        30 ~~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (460)
T PTZ00327         30 SRQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGC  109 (460)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccc
Confidence            456789999999999999999999987543   22221111111111100               0000           


Q ss_pred             -----eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           63 -----KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        63 -----~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                           ....+.|+|+||++.|.......+..+|++++|+|+.++.......+.+..+....  -.++++++||+|+.+..
T Consensus       110 ~~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lg--i~~iIVvlNKiDlv~~~  187 (460)
T PTZ00327        110 GHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMK--LKHIIILQNKIDLVKEA  187 (460)
T ss_pred             cccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcC--CCcEEEEEecccccCHH
Confidence                 02367899999999998777777889999999999987521111122223332222  13678899999997432


Q ss_pred             CCC--HHHHHHHHHH---cCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          138 NVS--TEEGKSLAEA---EGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       138 ~~~--~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ...  .+++.++...   .+++++++||++|.|++.+++.|.+.+
T Consensus       188 ~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        188 QAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            211  1223333222   367899999999999999888777533

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.62  E-value=1.5e-14  Score=117.41  Aligned_cols=81  Identities=19%  Similarity=0.240  Sum_probs=54.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE---------------------CC-eEEEEEEEeCCCc-
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI---------------------DG-KEVKAQIWDTAGQ-   75 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~-~~~~~~i~D~~G~-   75 (222)
                      |+++|.++||||||+++|++........|.++.+.......+                     ++ ..+.+++||+||. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            579999999999999999988754333333332222222111                     22 3467999999996 


Q ss_pred             ---chhhhhHH---HhhcCCCEEEEEEECC
Q 040481           76 ---ERFRAVTS---AYYRGAVGALIVYDIT   99 (222)
Q Consensus        76 ---~~~~~~~~---~~~~~~d~vi~v~d~~   99 (222)
                         +....+..   ..++.+|++++|+|+.
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               33433333   3589999999999997

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.62  E-value=2.8e-14  Score=99.62  Aligned_cols=106  Identities=23%  Similarity=0.204  Sum_probs=70.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh---------hhhHHHhhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF---------RAVTSAYYR   87 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~~   87 (222)
                      +|+++|.+|+|||||+|+|++.... ....+..+.......+.+++..+  .++|+||....         .......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~--~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKF--ILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEE--EEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeE--EEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            6999999999999999999986432 22223334344445555666554  59999995321         112334458


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK  130 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK  130 (222)
                      .+|++++|+|+.++.. +.....++.++    .+.|+++|+||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            9999999999887432 22334444442    55799999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.61  E-value=2.5e-14  Score=119.61  Aligned_cols=154  Identities=17%  Similarity=0.156  Sum_probs=109.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      .+.+-|.|||+-..|||||+++|-+..........++-.+--..+.++ .+-.+.|.|||||..|..++.....-+|+++
T Consensus       151 ~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvV  229 (683)
T KOG1145|consen  151 PRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVV  229 (683)
T ss_pred             CCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEE
Confidence            456789999999999999999998877654333333322222233333 2245779999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-------Hc--CCeEEEEccCCCC
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE-------AE--GLFFMETSALDST  164 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-------~~--~~~~~~~sa~~~~  164 (222)
                      +|+.++|+--    .+....+........|++|.+||+|.++   -..+.+.+-..       .+  ++.++++||++|+
T Consensus       230 LVVAadDGVm----pQT~EaIkhAk~A~VpiVvAinKiDkp~---a~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~  302 (683)
T KOG1145|consen  230 LVVAADDGVM----PQTLEAIKHAKSANVPIVVAINKIDKPG---ANPEKVKRELLSQGIVVEDLGGDVQVIPISALTGE  302 (683)
T ss_pred             EEEEccCCcc----HhHHHHHHHHHhcCCCEEEEEeccCCCC---CCHHHHHHHHHHcCccHHHcCCceeEEEeecccCC
Confidence            9999999743    3334444444557789999999999764   22232222222       22  2558999999999


Q ss_pred             CHHHHHHHHHH
Q 040481          165 NVKSAFEIVIR  175 (222)
Q Consensus       165 ~i~~~~~~i~~  175 (222)
                      |++.+-+.++-
T Consensus       303 nl~~L~eaill  313 (683)
T KOG1145|consen  303 NLDLLEEAILL  313 (683)
T ss_pred             ChHHHHHHHHH
Confidence            99998876554

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.60  E-value=1.2e-14  Score=128.72  Aligned_cols=154  Identities=20%  Similarity=0.174  Sum_probs=96.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC------------C-------------------CccceeEEEEEEEE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS------------K-------------------ATIGVEFQTQSMEI   60 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~------------~-------------------~~~~~~~~~~~~~~   60 (222)
                      .....++|+++|++++|||||+++|+........            .                   ...+++.......+
T Consensus        20 ~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~   99 (632)
T PRK05506         20 ERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYF   99 (632)
T ss_pred             cCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEE
Confidence            4455689999999999999999999864321110            0                   00122233333344


Q ss_pred             CCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC
Q 040481           61 DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS  140 (222)
Q Consensus        61 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~  140 (222)
                      ......+.|+||||++.+.......+..+|++++|+|+.++..-.. .+.+..+....  ..+++|++||+|+.+.....
T Consensus       100 ~~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t-~e~~~~~~~~~--~~~iivvvNK~D~~~~~~~~  176 (632)
T PRK05506        100 ATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT-RRHSFIASLLG--IRHVVLAVNKMDLVDYDQEV  176 (632)
T ss_pred             ccCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccC-HHHHHHHHHhC--CCeEEEEEEecccccchhHH
Confidence            4445667899999998886666667889999999999987642111 12222222221  14678899999996422211


Q ss_pred             H----HHHHHHHHHcC---CeEEEEccCCCCCHHH
Q 040481          141 T----EEGKSLAEAEG---LFFMETSALDSTNVKS  168 (222)
Q Consensus       141 ~----~~~~~~~~~~~---~~~~~~sa~~~~~i~~  168 (222)
                      .    .+...+....+   ++++++||++|.|+.+
T Consensus       177 ~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        177 FDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            1    12223333433   4699999999999985

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.60  E-value=1.4e-14  Score=121.16  Aligned_cols=164  Identities=24%  Similarity=0.235  Sum_probs=116.8

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcC--CC-------------CCCCccceeEEEEEEEE-CCeEEEEEEEeCCCc
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEF--NP-------------HSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQ   75 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~--~~-------------~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~   75 (222)
                      |.++.-++.|+-+-..|||||.++|+....  ..             ++...+++.-....+.+ ++..+.++++|||||
T Consensus        56 P~~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGH  135 (650)
T KOG0462|consen   56 PVENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGH  135 (650)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCc
Confidence            445666899999999999999999976432  11             11222333333333333 356688999999999


Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-HHHHHHHHHHcCCe
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS-TEEGKSLAEAEGLF  154 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~  154 (222)
                      ..|.......+..||++|+|+|+..+-.-+.+..++..++.    +..+|.|+||+|++..+.-. ..+..+.......+
T Consensus       136 vDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~----~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~  211 (650)
T KOG0462|consen  136 VDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEA----GLAIIPVLNKIDLPSADPERVENQLFELFDIPPAE  211 (650)
T ss_pred             ccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHc----CCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccc
Confidence            99988888889999999999999998765555555555543    45779999999997533211 12233333444567


Q ss_pred             EEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          155 FMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       155 ~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      ++.+||++|.|+.++|+.+++.+..
T Consensus       212 ~i~vSAK~G~~v~~lL~AII~rVPp  236 (650)
T KOG0462|consen  212 VIYVSAKTGLNVEELLEAIIRRVPP  236 (650)
T ss_pred             eEEEEeccCccHHHHHHHHHhhCCC
Confidence            9999999999999999988887653

>PRK13351 elongation factor G; Reviewed

Probab=99.60  E-value=1.9e-14  Score=128.76  Aligned_cols=119  Identities=18%  Similarity=0.219  Sum_probs=83.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC--------CC-----CC---CccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN--------PH-----SK---ATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~--------~~-----~~---~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      .+...+|+|+|+.++|||||+++|+.....        ..     +.   ...+.++......+....+.+.+|||||+.
T Consensus         5 ~~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~   84 (687)
T PRK13351          5 LMQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHI   84 (687)
T ss_pred             cccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcH
Confidence            345679999999999999999999753210        00     00   001122222222233345778999999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .+...+..+++.+|++|+|+|++++........| ..+..   .++|+++++||+|+..
T Consensus        85 df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~  139 (687)
T PRK13351         85 DFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVG  139 (687)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCC
Confidence            9988889999999999999999988765554444 33332   4579999999999853

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.60  E-value=4.3e-14  Score=107.78  Aligned_cols=159  Identities=19%  Similarity=0.169  Sum_probs=95.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCC--CCccceeEEEEEEEECCeEEEEEEEeCCCcchhh--------hh---HH
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHS--KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR--------AV---TS   83 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~---~~   83 (222)
                      ++|+++|.+|+|||||+|+|++.......  .+..+...........+  ..+.++||||.....        .+   ..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~--~~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG--RRVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC--eEEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            47999999999999999999988654322  22233333344444444  467899999954321        11   11


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCC------CHHHHHHHHHHcCCeE
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNV------STEEGKSLAEAEGLFF  155 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~------~~~~~~~~~~~~~~~~  155 (222)
                      .....+|++|+|+++.. .+-+. ...++.+.....  .-.++++|+|+.|......+      .....+.+.+..+-.|
T Consensus        79 ~~~~g~~~illVi~~~~-~t~~d-~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~  156 (196)
T cd01852          79 LSAPGPHAFLLVVPLGR-FTEEE-EQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRY  156 (196)
T ss_pred             hcCCCCEEEEEEEECCC-cCHHH-HHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeE
Confidence            23467899999999976 33111 222333333211  12477899999986532211      1134455555656555


Q ss_pred             EEEc-----cCCCCCHHHHHHHHHHHHHH
Q 040481          156 METS-----ALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       156 ~~~s-----a~~~~~i~~~~~~i~~~~~~  179 (222)
                      +..+     +..+.++.++++.+-+.+.+
T Consensus       157 ~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         157 VAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             EEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            5544     34567788888877766655

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).

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.59  E-value=7.4e-14  Score=110.33  Aligned_cols=157  Identities=22%  Similarity=0.186  Sum_probs=108.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-------hhhHHH
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-------RAVTSA   84 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~   84 (222)
                      .+....+|+++|+|++|||||+++|++-.......+.++.......+.+.+  .++++.|+||.-.-       ......
T Consensus        59 ~KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vls  136 (365)
T COG1163          59 KKSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLS  136 (365)
T ss_pred             eccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC--ceEEEEcCcccccCcccCCCCcceeee
Confidence            355567999999999999999999999877665555556666666676665  55779999984221       123456


Q ss_pred             hhcCCCEEEEEEECCChhh-HHHHHHHHHHHHhcCC--------------------------------------------
Q 040481           85 YYRGAVGALIVYDITRRTT-FDSISRWLDELKTHSD--------------------------------------------  119 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s-~~~~~~~~~~i~~~~~--------------------------------------------  119 (222)
                      ..++||++|+|+|+....+ .+.+.+.+...--...                                            
T Consensus       137 v~R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA  216 (365)
T COG1163         137 VARNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNA  216 (365)
T ss_pred             eeccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccc
Confidence            7899999999999986544 4343322211100000                                            


Q ss_pred             ---------------------CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          120 ---------------------TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       120 ---------------------~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                                           .=+|.++|.||.|+..     .++...+.+..  .++++||..+.|++++.+.|.+.+
T Consensus       217 ~V~Ir~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L  288 (365)
T COG1163         217 DVLIREDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVL  288 (365)
T ss_pred             eEEEecCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhh
Confidence                                 0267888999999864     23333344444  689999999999999988777654

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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=99.57  E-value=6.5e-15  Score=109.38  Aligned_cols=114  Identities=22%  Similarity=0.373  Sum_probs=70.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcchhhhhHHH---hhcCCCEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQERFRAVTSA---YYRGAVGA   92 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~---~~~~~d~v   92 (222)
                      ..|+++|+.|+|||+|+.+|..+......... ....   ...+ ....-.+.++|+|||++.......   +...+-+|
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n~---~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~I   79 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENNI---AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGI   79 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---S-SEEE---ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEE
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCCc---eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEE
Confidence            57999999999999999999998543322222 1111   1111 223345779999999988765444   47889999


Q ss_pred             EEEEECCC-hhhHHHHHHHH-HHHHhc--CCCCCcEEEEEeCCCCC
Q 040481           93 LIVYDITR-RTTFDSISRWL-DELKTH--SDTTVARMLVGNKCDLE  134 (222)
Q Consensus        93 i~v~d~~~-~~s~~~~~~~~-~~i~~~--~~~~~p~iiv~nK~Dl~  134 (222)
                      |||+|.+. ...+..+.+++ ..+...  ....+|++|+.||.|+.
T Consensus        80 IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~  125 (181)
T PF09439_consen   80 IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLF  125 (181)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTST
T ss_pred             EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccc
Confidence            99999974 44455554433 333222  24778999999999985

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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>PRK12739 elongation factor G; Reviewed

Probab=99.56  E-value=1e-13  Score=123.92  Aligned_cols=117  Identities=21%  Similarity=0.150  Sum_probs=81.2

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC------------------CCCCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN------------------PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      .....+|+|+|+.++|||||+++|+.....                  .+....++.+.....+.+  .+.++.++||||
T Consensus         5 ~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~--~~~~i~liDTPG   82 (691)
T PRK12739          5 LEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW--KGHRINIIDTPG   82 (691)
T ss_pred             ccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEE--CCEEEEEEcCCC
Confidence            345678999999999999999999752110                  001222333333444444  346788999999


Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      +..+...+...++.+|++|+|+|+.++..-.. ...+..+..   .++|+++++||+|+..
T Consensus        83 ~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt-~~i~~~~~~---~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         83 HVDFTIEVERSLRVLDGAVAVFDAVSGVEPQS-ETVWRQADK---YGVPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            98887788888999999999999988754222 222333332   4579999999999863

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.56  E-value=2.6e-14  Score=118.39  Aligned_cols=187  Identities=18%  Similarity=0.186  Sum_probs=132.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----------hhh-hH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----------FRA-VT   82 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~-~~   82 (222)
                      ..+.+++++|-|+||||||++.++.........++++..+.+..+  +.....|+++||||.-.          ..+ ..
T Consensus       166 p~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~--dykYlrwQViDTPGILD~plEdrN~IEmqsITA  243 (620)
T KOG1490|consen  166 PNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHL--DYKYLRWQVIDTPGILDRPEEDRNIIEMQIITA  243 (620)
T ss_pred             CCcCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhh--hhheeeeeecCCccccCcchhhhhHHHHHHHHH
Confidence            344689999999999999999998887766655555555555554  44567889999999321          111 12


Q ss_pred             HHhhcCCCEEEEEEECC--ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH---HHHHHHHcCCeEEE
Q 040481           83 SAYYRGAVGALIVYDIT--RRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEE---GKSLAEAEGLFFME  157 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~--~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~---~~~~~~~~~~~~~~  157 (222)
                      .+.++  -+|+|+.|++  ++.|.....+++..|...-. ..|+|+|+||+|+-....+..+.   .......-++++++
T Consensus       244 LAHLr--aaVLYfmDLSe~CGySva~QvkLfhsIKpLFa-NK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~  320 (620)
T KOG1490|consen  244 LAHLR--SAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFA-NKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQ  320 (620)
T ss_pred             HHHhh--hhheeeeechhhhCCCHHHHHHHHHHhHHHhc-CCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEE
Confidence            23334  4567777775  67888888888887776653 35899999999986555555443   33444455699999


Q ss_pred             EccCCCCCHHHHHHHHHHHHHHHhhhhccCCcchhhhhccccceeeccc
Q 040481          158 TSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAELSLNRVTLVKSE  206 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~  206 (222)
                      +|..+.+||-++-..+|+.++.++-.+..++++..- --.|+.....++
T Consensus       321 tS~~~eegVm~Vrt~ACe~LLa~RVE~Klks~~~~n-~vlnr~hvA~p~  368 (620)
T KOG1490|consen  321 TSCVQEEGVMDVRTTACEALLAARVEQKLKSESRVN-NVLNRIHLAEPA  368 (620)
T ss_pred             ecccchhceeeHHHHHHHHHHHHHHHHHhhhhhhhh-hhhhhhhhcCCC
Confidence            999999999999999999999888776666665541 122566655554

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.56  E-value=3.1e-14  Score=117.86  Aligned_cols=165  Identities=22%  Similarity=0.167  Sum_probs=104.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-h--------hhHHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-R--------AVTSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~--------~~~~~   84 (222)
                      +..++|+|+|+|+||||||+|+|......-..+ ..|++.+.....++-.++++.+.||+|..+- .        .....
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSp-v~GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k  344 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSREDRSIVSP-VPGTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARK  344 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCC-CCCcchhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHH
Confidence            344899999999999999999999887654332 2234444444444445577889999996541 1        11234


Q ss_pred             hhcCCCEEEEEEECCChhhH--HHHHHHHHHHHhcC------CCCCcEEEEEeCCCCCcC-CCCCHHHHHHHHHHc----
Q 040481           85 YYRGAVGALIVYDITRRTTF--DSISRWLDELKTHS------DTTVARMLVGNKCDLESI-RNVSTEEGKSLAEAE----  151 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~--~~~~~~~~~i~~~~------~~~~p~iiv~nK~Dl~~~-~~~~~~~~~~~~~~~----  151 (222)
                      -+..+|++++|+|+...++-  ..+...+.......      ..+.|++++.||+|+... ......... +....    
T Consensus       345 ~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~-~~~~~~~~~  423 (531)
T KOG1191|consen  345 RIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVV-YPSAEGRSV  423 (531)
T ss_pred             HHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCcee-ccccccCcc
Confidence            56889999999999554332  22233333332221      244788999999999753 222221111 11112    


Q ss_pred             CCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          152 GLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       152 ~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      .-...++|+++++|+.++...+...+...
T Consensus       424 ~~i~~~vs~~tkeg~~~L~~all~~~~~~  452 (531)
T KOG1191|consen  424 FPIVVEVSCTTKEGCERLSTALLNIVERL  452 (531)
T ss_pred             cceEEEeeechhhhHHHHHHHHHHHHHHh
Confidence            22356699999999999888777765544

>PRK09866 hypothetical protein; Provisional

Probab=99.56  E-value=3.6e-13  Score=115.89  Aligned_cols=108  Identities=14%  Similarity=0.141  Sum_probs=73.4

Q ss_pred             EEEEEeCCCcch-----hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC
Q 040481           66 KAQIWDTAGQER-----FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS  140 (222)
Q Consensus        66 ~~~i~D~~G~~~-----~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~  140 (222)
                      ++.|+||||...     +.......+..+|+|+||+|+....+... ......+.... ...|+++|+||+|+.+.....
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~-K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAVG-QSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcC-CCCCEEEEEEcccCCCcccch
Confidence            467899999643     23344557999999999999987644332 22334444332 235999999999986433333


Q ss_pred             HHHHHHHHH----Hc---CCeEEEEccCCCCCHHHHHHHHHH
Q 040481          141 TEEGKSLAE----AE---GLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       141 ~~~~~~~~~----~~---~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      .+.+..+..    ..   ...++++||+.|.|++++++.|..
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            455555432    11   235999999999999999988776

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.55  E-value=6e-14  Score=114.25  Aligned_cols=156  Identities=21%  Similarity=0.188  Sum_probs=105.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-----------------C------------CCCccceeEEEEEEEECCe
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP-----------------H------------SKATIGVEFQTQSMEIDGK   63 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~-----------------~------------~~~~~~~~~~~~~~~~~~~   63 (222)
                      ..+.++++++|+..+|||||+=+|+.....-                 +            .....|.+++.....+...
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~   83 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETD   83 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecC
Confidence            3566899999999999999998885532110                 0            0111356677777777777


Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---H--HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---F--DSISRWLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~--~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                      .+.+.|+|+||+..|-........+||+.|+|+|+.+.+.   |  ....+....+..... --.+||++||+|+.+.++
T Consensus        84 k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v~wde  162 (428)
T COG5256          84 KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLVSWDE  162 (428)
T ss_pred             CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEcccccccCH
Confidence            7889999999999988777778899999999999988741   1  111112222222222 124567799999987555


Q ss_pred             CCHHHHH----HHHHHc-----CCeEEEEccCCCCCHHHH
Q 040481          139 VSTEEGK----SLAEAE-----GLFFMETSALDSTNVKSA  169 (222)
Q Consensus       139 ~~~~~~~----~~~~~~-----~~~~~~~sa~~~~~i~~~  169 (222)
                      ...+++.    .+.+..     +++|+++|+..|.|+.+.
T Consensus       163 ~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         163 ERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            4444433    233222     366999999999998764

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.55  E-value=1.2e-13  Score=119.33  Aligned_cols=117  Identities=17%  Similarity=0.182  Sum_probs=81.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC--------------------CCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH--------------------SKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      ...+|+|+|++++|||||+.+|+.......                    .....+..+......+....+.+.+|||||
T Consensus         9 ~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTPG   88 (526)
T PRK00741          9 KRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTPG   88 (526)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECCC
Confidence            345999999999999999999964211000                    001113334444444444567789999999


Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      +..|.......++.+|++|+|+|++++..- ....++.....   .++|+++++||+|+..
T Consensus        89 ~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~---~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         89 HEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL---RDTPIFTFINKLDRDG  145 (526)
T ss_pred             chhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh---cCCCEEEEEECCcccc
Confidence            998887777788999999999999876432 22334433332   5689999999999864

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.55  E-value=2.9e-14  Score=101.92  Aligned_cols=153  Identities=20%  Similarity=0.252  Sum_probs=109.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      =|++++|-.++|||||++-|........ .||...+-+  ...+.  ++.++.+|.+|+..-...|..++..+|++++.+
T Consensus        21 gKllFlGLDNAGKTTLLHMLKdDrl~qh-vPTlHPTSE--~l~Ig--~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lv   95 (193)
T KOG0077|consen   21 GKLLFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTSE--ELSIG--GMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLV   95 (193)
T ss_pred             ceEEEEeecCCchhhHHHHHcccccccc-CCCcCCChH--Hheec--CceEEEEccccHHHHHHHHHHHHhhhceeEeee
Confidence            4899999999999999999988775433 333211111  12222  356789999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH---H---c--------C---CeEEEE
Q 040481           97 DITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE---A---E--------G---LFFMET  158 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~---~---~--------~---~~~~~~  158 (222)
                      |+.|.+-|.+....+..+.... -..+|++|.+||+|.+...  ..++.+....   .   .        +   +..+-|
T Consensus        96 da~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmc  173 (193)
T KOG0077|consen   96 DAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMC  173 (193)
T ss_pred             ehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEE
Confidence            9999999988877666654443 2568999999999987532  3333321111   1   1        1   225778


Q ss_pred             ccCCCCCHHHHHHHHHHH
Q 040481          159 SALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~  176 (222)
                      |...+.+..+.|.|+.+.
T Consensus       174 si~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  174 SIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             EEEccCccceeeeehhhh
Confidence            888888888888776553

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.55  E-value=1.6e-13  Score=113.25  Aligned_cols=162  Identities=20%  Similarity=0.233  Sum_probs=115.9

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC---------------CCCCCccceeEEEEEEEE---CCeEEEEEEEeCCC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN---------------PHSKATIGVEFQTQSMEI---DGKEVKAQIWDTAG   74 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~---------------~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G   74 (222)
                      ..+.-+..|+.+-..|||||..+|+.....               .+....+++........+   ++..+.++++||||
T Consensus         6 ~~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPG   85 (603)
T COG0481           6 QKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPG   85 (603)
T ss_pred             hhhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCC
Confidence            344457789999999999999999654321               112233333334444444   55789999999999


Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF  154 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  154 (222)
                      |-.|.-.....+..|.+.++|+|++.+-.-+.+...|..+...    .-++-|+||.||+..+.  ..-..+..+-.|++
T Consensus        86 HVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~~----LeIiPViNKIDLP~Adp--ervk~eIe~~iGid  159 (603)
T COG0481          86 HVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENN----LEIIPVLNKIDLPAADP--ERVKQEIEDIIGID  159 (603)
T ss_pred             ccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHcC----cEEEEeeecccCCCCCH--HHHHHHHHHHhCCC
Confidence            9988766667788999999999999987666666666666443    46788899999975322  22334445555655


Q ss_pred             ---EEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          155 ---FMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       155 ---~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                         .+.+||++|.||+++++.|++++-..
T Consensus       160 ~~dav~~SAKtG~gI~~iLe~Iv~~iP~P  188 (603)
T COG0481         160 ASDAVLVSAKTGIGIEDVLEAIVEKIPPP  188 (603)
T ss_pred             cchheeEecccCCCHHHHHHHHHhhCCCC
Confidence               78899999999999999998876533

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.55  E-value=1.3e-13  Score=108.87  Aligned_cols=160  Identities=17%  Similarity=0.350  Sum_probs=119.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC--CeEEEEEEEeCCCcchhhhhHHHhhcCC----C
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID--GKEVKAQIWDTAGQERFRAVTSAYYRGA----V   90 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~----d   90 (222)
                      -+|+++|+.++|||||+.+|-+..   ...+..+.+|-+..+.-+  +....+.+|-.-|+..+..+....+...    -
T Consensus        53 k~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~aet  129 (473)
T KOG3905|consen   53 KNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAET  129 (473)
T ss_pred             CeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccce
Confidence            589999999999999999997755   344555666665555442  2334567888888877777776666554    3


Q ss_pred             EEEEEEECCChhh-HHHHHHHHHHHHhcCCC-------------------------------------------------
Q 040481           91 GALIVYDITRRTT-FDSISRWLDELKTHSDT-------------------------------------------------  120 (222)
Q Consensus        91 ~vi~v~d~~~~~s-~~~~~~~~~~i~~~~~~-------------------------------------------------  120 (222)
                      .||++.|+++++. ++.+.+|..-+.++...                                                 
T Consensus       130 lviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~l  209 (473)
T KOG3905|consen  130 LVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHVL  209 (473)
T ss_pred             EEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCccccccc
Confidence            6899999999965 67777787554433210                                                 


Q ss_pred             ------------CCcEEEEEeCCCCC----cCCC-------CCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          121 ------------TVARMLVGNKCDLE----SIRN-------VSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       121 ------------~~p~iiv~nK~Dl~----~~~~-------~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                                  ++|++||.+|+|..    .+.+       +....++.||..+|+.++.+|+++..||+-++.+|.++.
T Consensus       210 lPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~  289 (473)
T KOG3905|consen  210 LPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRS  289 (473)
T ss_pred             cccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHh
Confidence                        79999999999972    2222       223456889999999999999999999999999999986


Q ss_pred             HH
Q 040481          178 YS  179 (222)
Q Consensus       178 ~~  179 (222)
                      +-
T Consensus       290 yG  291 (473)
T KOG3905|consen  290 YG  291 (473)
T ss_pred             cC
Confidence            53

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.54  E-value=6.2e-14  Score=95.70  Aligned_cols=136  Identities=22%  Similarity=0.227  Sum_probs=96.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC----cchhhhhHHHhhcCCCEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG----QERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----~~~~~~~~~~~~~~~d~vi   93 (222)
                      |++++|..|+|||||.+.|.+...  .+..|       +-+.++++.    .+|+||    +..+..........+|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~--lykKT-------QAve~~d~~----~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDT--LYKKT-------QAVEFNDKG----DIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchh--hhccc-------ceeeccCcc----ccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            799999999999999999987652  22222       223333222    789999    3444444556678899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEEccCCCCCHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEI  172 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~  172 (222)
                      +|-+++++++     .+-..+...  ...|+|-|++|.||.+..  ..+..++|..+-|.. +|++|+.++.|++++++.
T Consensus        70 ~v~~and~~s-----~f~p~f~~~--~~k~vIgvVTK~DLaed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~  140 (148)
T COG4917          70 YVHAANDPES-----RFPPGFLDI--GVKKVIGVVTKADLAEDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVDY  140 (148)
T ss_pred             eeecccCccc-----cCCcccccc--cccceEEEEecccccchH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHHH
Confidence            9999999976     111222222  224689999999998633  345567788887765 899999999999999987


Q ss_pred             HHH
Q 040481          173 VIR  175 (222)
Q Consensus       173 i~~  175 (222)
                      +..
T Consensus       141 L~~  143 (148)
T COG4917         141 LAS  143 (148)
T ss_pred             HHh
Confidence            654

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.53  E-value=1.5e-13  Score=122.88  Aligned_cols=117  Identities=21%  Similarity=0.156  Sum_probs=81.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-----CC-------------CCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP-----HS-------------KATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      .+...+|+|+|++++|||||+++|+......     ..             ...++.+.....+.+  .+..+.+|||||
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~--~~~~i~liDTPG   84 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFW--KGHRINIIDTPG   84 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEE--CCeEEEEEECCC
Confidence            3445699999999999999999997422110     00             112233333333433  456788999999


Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      +..+...+...++.+|++|+|+|+.++........| ..+..   .++|+++++||+|+..
T Consensus        85 ~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviNK~D~~~  141 (689)
T TIGR00484        85 HVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVNKMDKTG  141 (689)
T ss_pred             CcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEECCCCCC
Confidence            988877888889999999999999987554433223 33332   4579999999999874

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.

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.53  E-value=3.8e-13  Score=112.34  Aligned_cols=83  Identities=18%  Similarity=0.230  Sum_probs=56.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE---------------------C-CeEEEEEEEeCCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI---------------------D-GKEVKAQIWDTAG   74 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------------~-~~~~~~~i~D~~G   74 (222)
                      ++|+|+|.|+||||||+++|++........+..+.+.....+.+                     + .....+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            68999999999999999999988764433343333333322221                     1 1236789999999


Q ss_pred             c----chhhhhHH---HhhcCCCEEEEEEECC
Q 040481           75 Q----ERFRAVTS---AYYRGAVGALIVYDIT   99 (222)
Q Consensus        75 ~----~~~~~~~~---~~~~~~d~vi~v~d~~   99 (222)
                      .    .....+-.   ..++.+|++++|+|+.
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            4    22223333   3489999999999996

>TIGR00503 prfC peptide chain release factor 3

Probab=99.52  E-value=2.4e-13  Score=117.37  Aligned_cols=118  Identities=16%  Similarity=0.215  Sum_probs=82.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCc--CCC---C---------------CCCccceeEEEEEEEECCeEEEEEEEeCC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNE--FNP---H---------------SKATIGVEFQTQSMEIDGKEVKAQIWDTA   73 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~--~~~---~---------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   73 (222)
                      ....+|+|+|++++|||||+++|+...  ...   .               .....+..+......++...+.+.+||||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            345699999999999999999986321  100   0               00112344444455555567888999999


Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |+..+.......+..+|++|+|+|+.+... .....++.....   .++|+++++||+|+..
T Consensus        89 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~~  146 (527)
T TIGR00503        89 GHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             ChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECccccC
Confidence            998887767778899999999999987522 222344443332   4579999999999863

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.51  E-value=2.4e-13  Score=105.36  Aligned_cols=161  Identities=17%  Similarity=0.200  Sum_probs=105.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEE-ECCeEEEEEEEeCCCcch-------hhhhHHHh
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSME-IDGKEVKAQIWDTAGQER-------FRAVTSAY   85 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~i~D~~G~~~-------~~~~~~~~   85 (222)
                      ...++|+++|..|+|||||+|+|+.+...+...-..+.+.....+. +++  -.+.+||+||.++       +......+
T Consensus        37 ~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~d~  114 (296)
T COG3596          37 KEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYRDY  114 (296)
T ss_pred             cCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc--cceEEecCCCcccchhhhHHHHHHHHHH
Confidence            4568999999999999999999997766554433323333332222 233  3467999999554       66778889


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC-------CCCCHHHHHHHHHH--------
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI-------RNVSTEEGKSLAEA--------  150 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~-------~~~~~~~~~~~~~~--------  150 (222)
                      +...|.+++++++.|+.=--. .++++.+.... .+.++++++|.+|....       .......++++..+        
T Consensus       115 l~~~DLvL~l~~~~draL~~d-~~f~~dVi~~~-~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~~  192 (296)
T COG3596         115 LPKLDLVLWLIKADDRALGTD-EDFLRDVIILG-LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRL  192 (296)
T ss_pred             hhhccEEEEeccCCCccccCC-HHHHHHHHHhc-cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999999852111 33333332222 22688999999997532       01111122222221        


Q ss_pred             c--CCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          151 E--GLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       151 ~--~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      .  --|++.++...+.|++.+...+++.+-
T Consensus       193 ~q~V~pV~~~~~r~~wgl~~l~~ali~~lp  222 (296)
T COG3596         193 FQEVKPVVAVSGRLPWGLKELVRALITALP  222 (296)
T ss_pred             HhhcCCeEEeccccCccHHHHHHHHHHhCc
Confidence            1  245777888999999999998888655

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.49  E-value=8.5e-13  Score=111.80  Aligned_cols=162  Identities=17%  Similarity=0.335  Sum_probs=116.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC--eEEEEEEEeCCCcchhhhhHHHhhcCC----
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG--KEVKAQIWDTAGQERFRAVTSAYYRGA----   89 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~----   89 (222)
                      .-.|+|+|..++||||||.+|.+..   ...++.+.+|.+..+.-++  ....+++|-..|...+..+....+...    
T Consensus        25 ~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~  101 (472)
T PF05783_consen   25 EKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPN  101 (472)
T ss_pred             CceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccc
Confidence            4589999999999999999987643   4456777888877765532  234578999888766666665555433    


Q ss_pred             CEEEEEEECCChhh-HHHHHHHHHHHHhcC--------------------------------------------------
Q 040481           90 VGALIVYDITRRTT-FDSISRWLDELKTHS--------------------------------------------------  118 (222)
Q Consensus        90 d~vi~v~d~~~~~s-~~~~~~~~~~i~~~~--------------------------------------------------  118 (222)
                      -+||+|+|.+.++. ++.+.+|+..++.+.                                                  
T Consensus       102 t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~  181 (472)
T PF05783_consen  102 TLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDES  181 (472)
T ss_pred             eEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccccc
Confidence            26889999999875 445566653322210                                                  


Q ss_pred             ------------CCCCcEEEEEeCCCCCc----CCC-------CCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481          119 ------------DTTVARMLVGNKCDLES----IRN-------VSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       119 ------------~~~~p~iiv~nK~Dl~~----~~~-------~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                                  +.++|++||++|+|...    ...       +..+.++.||..+|+.++.+|++...+++-++++|.+
T Consensus       182 ~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h  261 (472)
T PF05783_consen  182 VLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILH  261 (472)
T ss_pred             ccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHH
Confidence                        01589999999999632    111       2223467888899999999999999999999999888


Q ss_pred             HHHHH
Q 040481          176 EIYSN  180 (222)
Q Consensus       176 ~~~~~  180 (222)
                      .++..
T Consensus       262 ~l~~~  266 (472)
T PF05783_consen  262 RLYGF  266 (472)
T ss_pred             HhccC
Confidence            87654

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>PRK00007 elongation factor G; Reviewed

Probab=99.48  E-value=5.7e-13  Score=119.10  Aligned_cols=117  Identities=21%  Similarity=0.194  Sum_probs=80.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcC--CC---C-------------CCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEF--NP---H-------------SKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~--~~---~-------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      .+...+|+|+|++++|||||+++|+....  ..   .             ....++.+.....+.+  .+..+.++||||
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~--~~~~~~liDTPG   84 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW--KDHRINIIDTPG   84 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEE--CCeEEEEEeCCC
Confidence            44567999999999999999999974211  00   0             1122233333333333  356788999999


Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      +..+.......+..+|++++|+|+..+..-.....| ..+..   .++|+++++||+|+..
T Consensus        85 ~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~-~~~~~---~~~p~iv~vNK~D~~~  141 (693)
T PRK00007         85 HVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVW-RQADK---YKVPRIAFVNKMDRTG  141 (693)
T ss_pred             cHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHH-HHHHH---cCCCEEEEEECCCCCC
Confidence            988877677788999999999999877543332222 22322   4578899999999875

>PRK12740 elongation factor G; Reviewed

Probab=99.46  E-value=1.4e-12  Score=116.63  Aligned_cols=107  Identities=22%  Similarity=0.251  Sum_probs=74.5

Q ss_pred             EcCCCCCHHHHHHHHhcCcCCCC------------------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHH
Q 040481           22 IGDSAVGKSNLLSRYARNEFNPH------------------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTS   83 (222)
Q Consensus        22 ~G~~~~GKStli~~l~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   83 (222)
                      +|+.++|||||+++|+.......                  .....+.......+.+  ..+.+.+|||||+..+...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~--~~~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEW--KGHKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEE--CCEEEEEEECCCcHHHHHHHH
Confidence            69999999999999955321100                  0112223333333433  456788999999988877788


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ..+..+|++++|+|++..........| ..+..   .++|+++|+||+|+.
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~  125 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRA  125 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCC
Confidence            889999999999999987665443333 23322   457999999999975

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.45  E-value=2.4e-12  Score=117.59  Aligned_cols=143  Identities=20%  Similarity=0.200  Sum_probs=90.7

Q ss_pred             CHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe-----------E-----EEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           28 GKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK-----------E-----VKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        28 GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~-----~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +||||+++|.+..........++..+--..+..+..           .     -.+.||||||++.+..+....+..+|+
T Consensus       473 ~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aDi  552 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLADL  552 (1049)
T ss_pred             ccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCCE
Confidence            499999999887664433322222222222222210           0     127899999999998887778888999


Q ss_pred             EEEEEECCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC------------HHH-HHH---------
Q 040481           92 ALIVYDITR---RTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS------------TEE-GKS---------  146 (222)
Q Consensus        92 vi~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~------------~~~-~~~---------  146 (222)
                      +++|+|+++   +++++.+.    .+..   .++|+++|+||+|+.......            .+. ..+         
T Consensus       553 vlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v~  625 (1049)
T PRK14845        553 AVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYELI  625 (1049)
T ss_pred             EEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHHh
Confidence            999999987   44443332    2332   347999999999986322210            010 001         


Q ss_pred             --HHH--------------HcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          147 --LAE--------------AEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       147 --~~~--------------~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                        ++.              ...++++++||++|+|+++++..+....
T Consensus       626 ~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~  672 (1049)
T PRK14845        626 GKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA  672 (1049)
T ss_pred             hHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence              111              1146799999999999999998776543

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=2.1e-12  Score=96.35  Aligned_cols=113  Identities=18%  Similarity=0.282  Sum_probs=77.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc---CCCEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR---GAVGAL   93 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~d~vi   93 (222)
                      ..|+++|+.+||||+|+-.|..+........   ++-......+....  ++++|.|||.+...-...++.   ++-+++
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtS---iepn~a~~r~gs~~--~~LVD~PGH~rlR~kl~e~~~~~~~akaiV  113 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTS---IEPNEATYRLGSEN--VTLVDLPGHSRLRRKLLEYLKHNYSAKAIV  113 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCeeee---eccceeeEeecCcc--eEEEeCCCcHHHHHHHHHHccccccceeEE
Confidence            4799999999999999999988753322211   11122222233322  679999999998877777776   789999


Q ss_pred             EEEECCC-hhhHHHHHH-HHHHHHhc--CCCCCcEEEEEeCCCCC
Q 040481           94 IVYDITR-RTTFDSISR-WLDELKTH--SDTTVARMLVGNKCDLE  134 (222)
Q Consensus        94 ~v~d~~~-~~s~~~~~~-~~~~i~~~--~~~~~p~iiv~nK~Dl~  134 (222)
                      ||+|... ......+.+ ++..+...  ...++|++|+.||.|+.
T Consensus       114 FVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~  158 (238)
T KOG0090|consen  114 FVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLF  158 (238)
T ss_pred             EEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhh
Confidence            9999853 223344433 44444444  35789999999999984

>PTZ00258 GTP-binding protein; Provisional

Probab=99.43  E-value=4.1e-12  Score=105.24  Aligned_cols=86  Identities=17%  Similarity=0.193  Sum_probs=61.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe---------------EEEEEEEeCCCcch-
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK---------------EVKAQIWDTAGQER-   77 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-   77 (222)
                      ...++|+|+|.|+||||||+|+|++........|.++.+.....+.+.+.               ..++.++|+||... 
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~g   98 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKG   98 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcC
Confidence            45679999999999999999999887765544566565555555555432               23488999999432 


Q ss_pred             ------hhhhHHHhhcCCCEEEEEEECC
Q 040481           78 ------FRAVTSAYYRGAVGALIVYDIT   99 (222)
Q Consensus        78 ------~~~~~~~~~~~~d~vi~v~d~~   99 (222)
                            ........++.+|++++|+|+.
T Consensus        99 a~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         99 ASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence                  1223345678899999999983

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.42  E-value=9.7e-13  Score=118.04  Aligned_cols=117  Identities=21%  Similarity=0.223  Sum_probs=80.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCc---------------CCCC---CCCccceeEEEEEEEECCeEEEEEEEeCCCc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNE---------------FNPH---SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~---------------~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   75 (222)
                      ....+|+++|+.++|||||+++|+...               +...   +..+.........+.+++..+.+.+|||||+
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            455799999999999999999997531               1110   1112222222223345667788999999999


Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ..|.......++.+|++|+|+|+.++...+....|.. +.   ..+.|+++++||+|..
T Consensus        97 ~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~-~~---~~~~p~ivviNKiD~~  151 (720)
T TIGR00490        97 VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQ-AL---KENVKPVLFINKVDRL  151 (720)
T ss_pred             cccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHH-HH---HcCCCEEEEEEChhcc
Confidence            9888888888999999999999988643222222222 22   2346888999999985

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.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.41  E-value=5.7e-12  Score=99.16  Aligned_cols=122  Identities=17%  Similarity=0.186  Sum_probs=73.9

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeEEEEEEEeCCCcchhh--h-h-----
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR--A-V-----   81 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--~-~-----   81 (222)
                      ......++|+++|.+|+|||||+|+|++........ ...+..........++  ..+.+|||||.....  . .     
T Consensus        26 ~~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~  103 (249)
T cd01853          26 EELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKIL  103 (249)
T ss_pred             hhccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHHH
Confidence            456677999999999999999999999976543322 2223333333333343  567899999965431  0 1     


Q ss_pred             --HHHhhc--CCCEEEEEEECCCh-hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCc
Q 040481           82 --TSAYYR--GAVGALIVYDITRR-TTFDSISRWLDELKTHSD--TTVARMLVGNKCDLES  135 (222)
Q Consensus        82 --~~~~~~--~~d~vi~v~d~~~~-~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~  135 (222)
                        ...++.  ..|+++||..++.. ..... ...++.+....+  .-.++++|.||+|...
T Consensus       104 ~~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~~~  163 (249)
T cd01853         104 SSIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAASSP  163 (249)
T ss_pred             HHHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCccCC
Confidence              122332  56888888777543 22221 233333333222  1246899999999753

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.41  E-value=4.2e-12  Score=101.48  Aligned_cols=153  Identities=22%  Similarity=0.193  Sum_probs=106.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC----------CC---------------------CCccceeEEEEEEEEC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP----------HS---------------------KATIGVEFQTQSMEID   61 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~----------~~---------------------~~~~~~~~~~~~~~~~   61 (222)
                      ....+|.+.+|.-.-||||||=+|+...-..          .+                     ....|+++.+.+.-+.
T Consensus         3 ~k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFs   82 (431)
T COG2895           3 HKSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFS   82 (431)
T ss_pred             cccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecc
Confidence            3456899999999999999999986643100          00                     1123666777777777


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST  141 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~  141 (222)
                      ....+|.+-|||||++|-.+.......||+.|+++|+-.+-  ....+-...+.....- ..+++.+||+||.+..+-..
T Consensus        83 T~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gv--l~QTrRHs~I~sLLGI-rhvvvAVNKmDLvdy~e~~F  159 (431)
T COG2895          83 TEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGV--LEQTRRHSFIASLLGI-RHVVVAVNKMDLVDYSEEVF  159 (431)
T ss_pred             cccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhh--HHHhHHHHHHHHHhCC-cEEEEEEeeecccccCHHHH
Confidence            77888999999999999887777788899999999996552  1111212222222111 25567789999987655444


Q ss_pred             HH----HHHHHHHcCCe---EEEEccCCCCCHHH
Q 040481          142 EE----GKSLAEAEGLF---FMETSALDSTNVKS  168 (222)
Q Consensus       142 ~~----~~~~~~~~~~~---~~~~sa~~~~~i~~  168 (222)
                      +.    -..|+..++..   ++++||..|.||-.
T Consensus       160 ~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~  193 (431)
T COG2895         160 EAIVADYLAFAAQLGLKDVRFIPISALLGDNVVS  193 (431)
T ss_pred             HHHHHHHHHHHHHcCCCcceEEechhccCCcccc
Confidence            43    34667777654   99999999999865

>TIGR00101 ureG urease accessory protein UreG

Probab=99.41  E-value=8e-12  Score=95.29  Aligned_cols=103  Identities=14%  Similarity=0.095  Sum_probs=65.6

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEG  144 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~  144 (222)
                      ....++++.|..........   -+|.+|.|+|+.+..+...  .+...+      ...=++++||+|+.+......+..
T Consensus        92 ~D~iiIEt~G~~l~~~~~~~---l~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSPE---LADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CCEEEEECCCCCcccccchh---hhCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHH
Confidence            34568888884332222222   2588999999998766321  111111      112289999999974322333333


Q ss_pred             HHHHHH--cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          145 KSLAEA--EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       145 ~~~~~~--~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      .+....  .+++++++||++|+|+.++|+++.++++
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            444443  4678999999999999999999987543

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.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.40  E-value=9e-12  Score=99.73  Aligned_cols=126  Identities=13%  Similarity=0.091  Sum_probs=72.8

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeEEEEEEEeCCCcchhhh-------hHHH
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA-------VTSA   84 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~   84 (222)
                      ....++|+++|.+|+||||++|+|++........ .+.+..........+  +..+.+|||||......       ....
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~--G~~l~VIDTPGL~d~~~~~e~~~~~ik~  112 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRA--GFTLNIIDTPGLIEGGYINDQAVNIIKR  112 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEEC--CeEEEEEECCCCCchHHHHHHHHHHHHH
Confidence            3567899999999999999999999876532211 222222222222233  46788999999654311       1122


Q ss_pred             hh--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCC
Q 040481           85 YY--RGAVGALIVYDITRRTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVS  140 (222)
Q Consensus        85 ~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~  140 (222)
                      ++  ...|+++||.+++.....+.-...+..+.....  .-.+++|++|+.|..+.+..+
T Consensus       113 ~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~  172 (313)
T TIGR00991       113 FLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLE  172 (313)
T ss_pred             HhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCC
Confidence            22  258999999776532111111223333333211  224679999999976444333

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.40  E-value=8.9e-12  Score=105.24  Aligned_cols=166  Identities=16%  Similarity=0.230  Sum_probs=126.0

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      +..+..+++.++|+.++|||.|++.++++.+...+..+....+.+..+...+...++.+.|++-. ......... ..||
T Consensus       420 ~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cD  497 (625)
T KOG1707|consen  420 QTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACD  497 (625)
T ss_pred             cccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceee
Confidence            44556689999999999999999999999988877777777788887777788778888888754 222222222 7789


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~  169 (222)
                      ++.++||.+++.+|+.+...++.....  .+.|+++|++|.|+.+..+...-...+++.+++++ .+.+|.+.... .++
T Consensus       498 v~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~l  574 (625)
T KOG1707|consen  498 VACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NEL  574 (625)
T ss_pred             eEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chH
Confidence            999999999999999887766655444  67899999999999764432222227899999987 67778775333 889


Q ss_pred             HHHHHHHHHHHh
Q 040481          170 FEIVIREIYSNV  181 (222)
Q Consensus       170 ~~~i~~~~~~~~  181 (222)
                      |.+|...+....
T Consensus       575 f~kL~~~A~~Ph  586 (625)
T KOG1707|consen  575 FIKLATMAQYPH  586 (625)
T ss_pred             HHHHHHhhhCCC
Confidence            999888766443

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.39  E-value=5.7e-12  Score=97.21  Aligned_cols=161  Identities=21%  Similarity=0.184  Sum_probs=91.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCC--CCccceeEEEEEEEECCeEEEEEEEeCCCcchh-------hhhH----H
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHS--KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-------RAVT----S   83 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~----~   83 (222)
                      ++|+++|..|+||||++|.+++.......  ....+..........++  ..+.++||||-...       ...+    .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            58999999999999999999998765433  23334445555556666  44679999993221       1111    1


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHH--HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-------HHHHHHHHHHcCCe
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSI--SRWLDELKTHSDTTVARMLVGNKCDLESIRNVS-------TEEGKSLAEAEGLF  154 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~--~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~-------~~~~~~~~~~~~~~  154 (222)
                      ......++++||+.+. +.+-...  .+++..+.... .-..++||+|..|......+.       ......+....+-.
T Consensus        79 ~~~~g~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~-~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R  156 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLG-RFTEEDREVLELLQEIFGEE-IWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGR  156 (212)
T ss_dssp             HTTT-ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGG-GGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             hccCCCeEEEEEEecC-cchHHHHHHHHHHHHHccHH-HHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCE
Confidence            2345689999999998 4332222  22333332221 113578888888865433311       12244556666777


Q ss_pred             EEEEccC------CCCCHHHHHHHHHHHHHHHh
Q 040481          155 FMETSAL------DSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       155 ~~~~sa~------~~~~i~~~~~~i~~~~~~~~  181 (222)
                      |...+.+      ....+.+++..+-+.+.+..
T Consensus       157 ~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  157 YHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             EEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            7777665      23567777776666555554

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.38  E-value=2.2e-12  Score=101.46  Aligned_cols=96  Identities=19%  Similarity=0.209  Sum_probs=77.9

Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF  154 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  154 (222)
                      +++..+.+.+++++|++++|||+.++. +++.+.+|+..+..   .++|+++|+||+||.+......+....+ ...+++
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~-~~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIY-RNIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHH-HHCCCe
Confidence            556667778899999999999999887 89999999987754   5589999999999975444443444444 357889


Q ss_pred             EEEEccCCCCCHHHHHHHHHH
Q 040481          155 FMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       155 ~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ++++||++|.|++++|..+..
T Consensus       100 v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcC
Confidence            999999999999999987764

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd00066 G-alpha G protein alpha subunit

Probab=99.37  E-value=4.8e-11  Score=97.38  Aligned_cols=117  Identities=19%  Similarity=0.219  Sum_probs=81.6

Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCCh----------hhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCC
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRR----------TTFDSISRWLDELKTHSD-TTVARMLVGNKCD  132 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~D  132 (222)
                      .+.+.+||++|+......|..++..++++|||+|+++.          ..+......+..+..... .+.|+++++||.|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D  239 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKD  239 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChH
Confidence            46688999999999999999999999999999999874          234333333444433322 6789999999999


Q ss_pred             CCcC--------------C--CCCHHHHHHHHHH----------cCCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          133 LESI--------------R--NVSTEEGKSLAEA----------EGLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       133 l~~~--------------~--~~~~~~~~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      +-.+              .  ....+.+..+...          ..+.+..++|.+..++..+|..+.+.++..
T Consensus       240 ~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         240 LFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             HHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence            6210              0  1233444444332          123456788999999999998877766654

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.37  E-value=9.8e-12  Score=87.32  Aligned_cols=114  Identities=31%  Similarity=0.374  Sum_probs=82.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      +||+++|+.|+|||+|+.++....+...+. ++.+                           +.......++.++.+++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            489999999999999999997766644333 3322                           222334467888999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      ++..+..+++.+  |...+....+..+|.++++||.|+.+...+..+...        .++++|++++.|+.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGL--------EFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHH--------HHHHHhCCCcchhh
Confidence            999999998766  887777666677888999999998543344333332        35567888888874

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.36  E-value=6.1e-11  Score=97.31  Aligned_cols=83  Identities=18%  Similarity=0.158  Sum_probs=58.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeE---------------EEEEEEeCCCcch----
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKE---------------VKAQIWDTAGQER----   77 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~----   77 (222)
                      ++|+++|.|+||||||+|+|++........|.++.+.....+.+.+..               ..+.++|+||...    
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            689999999999999999999987544444555555555555544421               2588999999432    


Q ss_pred             ---hhhhHHHhhcCCCEEEEEEECC
Q 040481           78 ---FRAVTSAYYRGAVGALIVYDIT   99 (222)
Q Consensus        78 ---~~~~~~~~~~~~d~vi~v~d~~   99 (222)
                         ........++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence               1112334578999999999984

>cd01882 BMS1 Bms1

Probab=99.33  E-value=2.7e-11  Score=94.26  Aligned_cols=142  Identities=15%  Similarity=0.171  Sum_probs=83.8

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ......|+++|++|+|||||++.|.+...........+. +.   + .......+.++|+||..  . ......+.+|++
T Consensus        36 ~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i~---i-~~~~~~~i~~vDtPg~~--~-~~l~~ak~aDvV  107 (225)
T cd01882          36 EPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-IT---V-VTGKKRRLTFIECPNDI--N-AMIDIAKVADLV  107 (225)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-EE---E-EecCCceEEEEeCCchH--H-HHHHHHHhcCEE
Confidence            344467999999999999999999865321111111111 11   1 11234567899999864  2 223446889999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCCC---HHHHHH-HHHH--cCCeEEEEccCCCCC
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARM-LVGNKCDLESIRNVS---TEEGKS-LAEA--EGLFFMETSALDSTN  165 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-iv~nK~Dl~~~~~~~---~~~~~~-~~~~--~~~~~~~~sa~~~~~  165 (222)
                      ++|+|+........ ...+..+..   .+.|.+ +|+||.|+.+.....   ...++. +...  .+.+++.+||+++-.
T Consensus       108 llviDa~~~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~  183 (225)
T cd01882         108 LLLIDASFGFEMET-FEFLNILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGR  183 (225)
T ss_pred             EEEEecCcCCCHHH-HHHHHHHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCC
Confidence            99999987644222 233333333   346754 599999986422111   112222 2221  357899999998744


Q ss_pred             H
Q 040481          166 V  166 (222)
Q Consensus       166 i  166 (222)
                      +
T Consensus       184 ~  184 (225)
T cd01882         184 Y  184 (225)
T ss_pred             C
Confidence            3

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.

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.32  E-value=5.6e-12  Score=99.60  Aligned_cols=163  Identities=19%  Similarity=0.131  Sum_probs=106.0

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCC---CCCCccceeEEEE------------------EEEEC------CeEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNP---HSKATIGVEFQTQ------------------SMEID------GKEVK   66 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~------------------~~~~~------~~~~~   66 (222)
                      +.+++|.++|+-..|||||.++|.+--...   +....+++..-+.                  .-.+.      .-...
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            678999999999999999999997743211   1111111111111                  00111      12356


Q ss_pred             EEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC--CCCHHHH
Q 040481           67 AQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR--NVSTEEG  144 (222)
Q Consensus        67 ~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~  144 (222)
                      +.|+|+||++-+-........-.|+.++|++++++-.-....+-+..+.-..-  ..++|+-||.|++...  ....+++
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIigi--k~iiIvQNKIDlV~~E~AlE~y~qI  165 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGI--KNIIIVQNKIDLVSRERALENYEQI  165 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhcc--ceEEEEecccceecHHHHHHHHHHH
Confidence            78999999998866655555667999999999875322222333333333222  3568889999997532  2445566


Q ss_pred             HHHHHH---cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          145 KSLAEA---EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       145 ~~~~~~---~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ++|.+.   .+++++++||..+.||+.+++.|.+.+-
T Consensus       166 k~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ip  202 (415)
T COG5257         166 KEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIP  202 (415)
T ss_pred             HHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCC
Confidence            777665   3788999999999999999886666543

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.32  E-value=2.8e-12  Score=96.87  Aligned_cols=147  Identities=20%  Similarity=0.280  Sum_probs=97.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh-----hhHHHhhcCC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-----AVTSAYYRGA   89 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----~~~~~~~~~~   89 (222)
                      .-||+++|.+|+|||++--.+..+... ....++.++++....+.+-| .+.+++||++|++.+-     ......++++
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflG-nl~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLG-NLVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhh-hheeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            358999999999999987666654432 23345555677766666655 3558899999988542     2344678999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHH---HHHhcCCCCCcEEEEEeCCCCCcC--CCCCHHH----HHHHHHHcCCeEEEEcc
Q 040481           90 VGALIVYDITRRTTFDSISRWLD---ELKTHSDTTVARMLVGNKCDLESI--RNVSTEE----GKSLAEAEGLFFMETSA  160 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~---~i~~~~~~~~p~iiv~nK~Dl~~~--~~~~~~~----~~~~~~~~~~~~~~~sa  160 (222)
                      +++|+|||+...+--..+..+-.   .+.+.. +...+++..+|+|+...  +....++    .+......++.++++|.
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~S-P~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Tsi  161 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQNS-PEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSI  161 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhcC-CcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccch
Confidence            99999999988865444444433   333333 44567888999999642  2222222    23333445677888888


Q ss_pred             CCCC
Q 040481          161 LDST  164 (222)
Q Consensus       161 ~~~~  164 (222)
                      .+..
T Consensus       162 wDet  165 (295)
T KOG3886|consen  162 WDET  165 (295)
T ss_pred             hhHH
Confidence            8754

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.32  E-value=7.7e-12  Score=113.90  Aligned_cols=118  Identities=20%  Similarity=0.205  Sum_probs=80.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC--C--------------CCCCccceeEEEEEEEE--------------CC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN--P--------------HSKATIGVEFQTQSMEI--------------DG   62 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~--~--------------~~~~~~~~~~~~~~~~~--------------~~   62 (222)
                      .+...+|+|+|+.++|||||+.+|+.....  .              +.....++......+.+              .+
T Consensus        16 ~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~   95 (843)
T PLN00116         16 KHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDG   95 (843)
T ss_pred             ccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCC
Confidence            455679999999999999999999764321  0              00011111111122222              12


Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ..+.++++||||+..|.......++.+|++|+|+|+.++-.......|.. +   ...++|+++++||+|..
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~-~---~~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQ-A---LGERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHH-H---HHCCCCEEEEEECCccc
Confidence            36778999999999998888888999999999999998754333233332 2   23457999999999986

>PRK13768 GTPase; Provisional

Probab=99.31  E-value=1.5e-11  Score=97.26  Aligned_cols=113  Identities=18%  Similarity=0.137  Sum_probs=68.3

Q ss_pred             EEEEEeCCCcchhh---hhHHHh---hcC--CCEEEEEEECCChhhHHH-HHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481           66 KAQIWDTAGQERFR---AVTSAY---YRG--AVGALIVYDITRRTTFDS-ISRWLDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus        66 ~~~i~D~~G~~~~~---~~~~~~---~~~--~d~vi~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                      .+.+||+||..++.   ..+..+   +..  .+++++|+|+........ ...++-.+......++|+++|+||+|+...
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~  177 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSE  177 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCc
Confidence            46799999976532   222222   232  899999999976543222 222222211111246899999999998653


Q ss_pred             CCCCH--HHHH------------------------HHHHHcC--CeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          137 RNVST--EEGK------------------------SLAEAEG--LFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       137 ~~~~~--~~~~------------------------~~~~~~~--~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      .....  ....                        +.....+  .+++++|++++.|+++++++|.+.+.
T Consensus       178 ~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~  247 (253)
T PRK13768        178 EELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC  247 (253)
T ss_pred             hhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence            22210  0000                        1122223  57899999999999999998877653

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.31  E-value=2.4e-11  Score=100.34  Aligned_cols=160  Identities=18%  Similarity=0.193  Sum_probs=106.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCC--------------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhH
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPH--------------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVT   82 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   82 (222)
                      -+|+|+-+-..|||||++.|+.++..-.              .....|+++--+..-+...++.++|+|||||..|....
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEV   85 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEV   85 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchh
Confidence            4799999999999999999988653211              11223444444444445556788999999999999999


Q ss_pred             HHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHH------HHcCCe
Q 040481           83 SAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTEEGKSLA------EAEGLF  154 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~------~~~~~~  154 (222)
                      ...+..+|++++++|+.++--    .+..--+......+.+.|+|+||+|-+..+.  +..+-..-|.      ++++.|
T Consensus        86 ERvl~MVDgvlLlVDA~EGpM----PQTrFVlkKAl~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFP  161 (603)
T COG1217          86 ERVLSMVDGVLLLVDASEGPM----PQTRFVLKKALALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFP  161 (603)
T ss_pred             hhhhhhcceEEEEEEcccCCC----CchhhhHHHHHHcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCc
Confidence            999999999999999988632    1111112222234456699999999865322  2222222222      234677


Q ss_pred             EEEEccCCC----------CCHHHHHHHHHHHHHHH
Q 040481          155 FMETSALDS----------TNVKSAFEIVIREIYSN  180 (222)
Q Consensus       155 ~~~~sa~~~----------~~i~~~~~~i~~~~~~~  180 (222)
                      ++-.|+..|          .++.-+|+.|++++...
T Consensus       162 ivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P  197 (603)
T COG1217         162 IVYASARNGTASLDPEDEADDMAPLFETILDHVPAP  197 (603)
T ss_pred             EEEeeccCceeccCccccccchhHHHHHHHHhCCCC
Confidence            888888765          34667777777766543

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.31  E-value=1.1e-11  Score=103.98  Aligned_cols=171  Identities=19%  Similarity=0.310  Sum_probs=130.4

Q ss_pred             CCCCCCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHH
Q 040481            5 DEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSA   84 (222)
Q Consensus         5 ~~~~~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   84 (222)
                      ++|++-+...+++|+.|||..++|||+|+++++.+.+.....+.-+  .+.+.+..++...-+.+.|.+|...     ..
T Consensus        19 sqewtlsrsipelk~givg~~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~~~-----aQ   91 (749)
T KOG0705|consen   19 SQEWTLSRSIPELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGHPD-----AQ   91 (749)
T ss_pred             ccceeeecccchhheeeeecccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCCch-----hh
Confidence            5778888888999999999999999999999999887666555432  3445555677777788889888433     34


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCc--CCCCCHHHHHHHH-HHcCCeEEEEcc
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLES--IRNVSTEEGKSLA-EAEGLFFMETSA  160 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~--~~~~~~~~~~~~~-~~~~~~~~~~sa  160 (222)
                      |...+|++||||.+.+..+|+.+..+.-.+..... ..+|+++++++.-...  .+.+.....++++ +...+.||++++
T Consensus        92 ft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~a  171 (749)
T KOG0705|consen   92 FCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCA  171 (749)
T ss_pred             hhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecch
Confidence            56779999999999999999999887766655443 5688888888765432  2334444555444 445688999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhh
Q 040481          161 LDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      ..|.++..+|..++.++...+.
T Consensus       172 tyGlnv~rvf~~~~~k~i~~~~  193 (749)
T KOG0705|consen  172 TYGLNVERVFQEVAQKIVQLRK  193 (749)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHh
Confidence            9999999999999887776644

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.31  E-value=2.1e-11  Score=105.41  Aligned_cols=162  Identities=19%  Similarity=0.211  Sum_probs=108.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC----CCccceeEEEEE----------------EEECCeEEEEEEEeC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS----KATIGVEFQTQS----------------MEIDGKEVKAQIWDT   72 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~----~~~~~~~~~~~~----------------~~~~~~~~~~~i~D~   72 (222)
                      .-+.+-+||+|+..+|||-|+..+.+.......    ...+|.++....                +.+.    -+.++||
T Consensus       472 ~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvP----g~lvIdt  547 (1064)
T KOG1144|consen  472 NLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVP----GLLVIDT  547 (1064)
T ss_pred             hcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCC----eeEEecC
Confidence            334567999999999999999999775442221    222233333221                1111    2679999


Q ss_pred             CCcchhhhhHHHhhcCCCEEEEEEECCCh---hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CC--------
Q 040481           73 AGQERFRAVTSAYYRGAVGALIVYDITRR---TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN-VS--------  140 (222)
Q Consensus        73 ~G~~~~~~~~~~~~~~~d~vi~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~-~~--------  140 (222)
                      ||++.|..+.......||.+|+|+|+..+   ++++.    ++.++.   ...|+||.+||+|-...+. ..        
T Consensus       548 pghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiES----i~lLR~---rktpFivALNKiDRLYgwk~~p~~~i~~~l  620 (1064)
T KOG1144|consen  548 PGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIES----INLLRM---RKTPFIVALNKIDRLYGWKSCPNAPIVEAL  620 (1064)
T ss_pred             CCchhhhhhhhccccccceEEEEeehhccCCcchhHH----HHHHHh---cCCCeEEeehhhhhhcccccCCCchHHHHH
Confidence            99999999988899999999999999875   33222    333333   5579999999999532110 00        


Q ss_pred             --------H-------HHHHHHHHH-cC-------------CeEEEEccCCCCCHHHHHHHHHHHHHHHhhhhc
Q 040481          141 --------T-------EEGKSLAEA-EG-------------LFFMETSALDSTNVKSAFEIVIREIYSNVSRKV  185 (222)
Q Consensus       141 --------~-------~~~~~~~~~-~~-------------~~~~~~sa~~~~~i~~~~~~i~~~~~~~~~~~~  185 (222)
                              .       ..+.+|+.+ ++             +.++++||..|+||.+++.+|++........+.
T Consensus       621 kkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~kl  694 (1064)
T KOG1144|consen  621 KKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEKL  694 (1064)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHHH
Confidence                    0       011222221 11             347899999999999999999998877766655

>PTZ00416 elongation factor 2; Provisional

Probab=99.31  E-value=1.1e-11  Score=112.69  Aligned_cols=118  Identities=18%  Similarity=0.182  Sum_probs=79.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC----------------CCCCccceeEEEEEEEEC--------CeEEEEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP----------------HSKATIGVEFQTQSMEID--------GKEVKAQ   68 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~----------------~~~~~~~~~~~~~~~~~~--------~~~~~~~   68 (222)
                      .+...+|+++|+.++|||||+++|+......                +....+++........+.        +..+.+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            3445699999999999999999998632110                000111111111222222        2256788


Q ss_pred             EEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           69 IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        69 i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ++||||+..+.......++.+|++|+|+|+.++-.-.....| ..+..   .++|+++++||+|+.
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~-~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVL-RQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHH-HHHHH---cCCCEEEEEEChhhh
Confidence            999999999888788889999999999999887443322223 33322   347999999999986

>smart00275 G_alpha G protein alpha subunit

Probab=99.31  E-value=3.2e-10  Score=93.37  Aligned_cols=116  Identities=15%  Similarity=0.199  Sum_probs=80.0

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCCh----------hhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCC
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRR----------TTFDSISRWLDELKTHS-DTTVARMLVGNKCDL  133 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl  133 (222)
                      +.+.+||++|+......|..++..++++|||+|+++.          ..+......+..+.... -.+.|++|++||.|+
T Consensus       184 ~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~  263 (342)
T smart00275      184 LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDL  263 (342)
T ss_pred             eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHh
Confidence            5578999999999999999999999999999999973          23444444444444332 266899999999997


Q ss_pred             CcC--------------C-CCCHHHHHHHHHH-----c------CCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          134 ESI--------------R-NVSTEEGKSLAEA-----E------GLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       134 ~~~--------------~-~~~~~~~~~~~~~-----~------~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      -..              . ....+.+..+...     .      .+....++|.+..++..+|..+.+.++..
T Consensus       264 ~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~  336 (342)
T smart00275      264 FEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQR  336 (342)
T ss_pred             HHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHH
Confidence            210              0 0123344333322     1      13356788999999999998777766544

Subunit of G proteins that contains the guanine nucleotide binding site

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.30  E-value=4.6e-11  Score=107.57  Aligned_cols=118  Identities=25%  Similarity=0.227  Sum_probs=78.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC----------------CCccceeEEEEEE--EECCeEEEEEEEeCCC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS----------------KATIGVEFQTQSM--EIDGKEVKAQIWDTAG   74 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~----------------~~~~~~~~~~~~~--~~~~~~~~~~i~D~~G   74 (222)
                      .....+|+++|+.++|||||+.+|+........                ...+++......+  .+++..+.+.++||||
T Consensus        17 ~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG   96 (731)
T PRK07560         17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPG   96 (731)
T ss_pred             hhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCC
Confidence            345568999999999999999999763211000                0001111111111  2344567889999999


Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      +..|.......++.+|++|+|+|+..+..-.....|.... .   .+.|.++++||+|..
T Consensus        97 ~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~-~---~~~~~iv~iNK~D~~  152 (731)
T PRK07560         97 HVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQAL-R---ERVKPVLFINKVDRL  152 (731)
T ss_pred             ccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHH-H---cCCCeEEEEECchhh
Confidence            9998888888899999999999998874433223333222 2   235778999999975

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.29  E-value=4.5e-11  Score=91.93  Aligned_cols=149  Identities=15%  Similarity=0.169  Sum_probs=83.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCC------------CCCCc----cceeEEEEEEEECC---------------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNP------------HSKAT----IGVEFQTQSMEIDG---------------   62 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~------------~~~~~----~~~~~~~~~~~~~~---------------   62 (222)
                      .....|+++|+.|+|||||+++++......            .....    .+.+  .... .++               
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~--~~~l-~~gcic~~~~~~~~~~l~   96 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAP--AIQI-NTGKECHLDAHMVAHALE   96 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCc--EEEE-cCCCcccCChHHHHHHHH
Confidence            346789999999999999999997641110            00000    0100  0000 000               


Q ss_pred             ----eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           63 ----KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        63 ----~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                          ....+.++++.|.-.. .  ..+....+..+.|+|+.+....  ...... .     ...|.++++||+|+.+...
T Consensus        97 ~~~~~~~d~IiIEt~G~l~~-~--~~~~~~~~~~i~Vvd~~~~d~~--~~~~~~-~-----~~~a~iiv~NK~Dl~~~~~  165 (207)
T TIGR00073        97 DLPLDDIDLLFIENVGNLVC-P--ADFDLGEHMRVVLLSVTEGDDK--PLKYPG-M-----FKEADLIVINKADLAEAVG  165 (207)
T ss_pred             HhccCCCCEEEEecCCCcCC-C--cccccccCeEEEEEecCcccch--hhhhHh-H-----HhhCCEEEEEHHHccccch
Confidence                1234557777772110 0  0111223455667777655421  111111 1     2357799999999975322


Q ss_pred             CCHHHHHHHHHHc--CCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          139 VSTEEGKSLAEAE--GLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       139 ~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      .......+.....  .++++++||+++.|++++|+++.++
T Consensus       166 ~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       166 FDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            2233344444443  4889999999999999999998774

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd01900 YchF YchF subfamily

Probab=99.28  E-value=8.5e-11  Score=93.43  Aligned_cols=81  Identities=17%  Similarity=0.144  Sum_probs=57.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeE---------------EEEEEEeCCCcch------
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKE---------------VKAQIWDTAGQER------   77 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~------   77 (222)
                      |+|+|.|+||||||+|+|++........|.++.+.....+.+.+..               ..+.++|+||...      
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            5799999999999999999987755445555555555555554432               2588999999432      


Q ss_pred             -hhhhHHHhhcCCCEEEEEEECC
Q 040481           78 -FRAVTSAYYRGAVGALIVYDIT   99 (222)
Q Consensus        78 -~~~~~~~~~~~~d~vi~v~d~~   99 (222)
                       ........++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence             1112334568899999999873

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.27  E-value=1.4e-10  Score=92.59  Aligned_cols=153  Identities=16%  Similarity=0.185  Sum_probs=94.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcC----CCC---CCCccceeEEEEEEEE-------CCeEEEEEEEeCCCcchhh
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEF----NPH---SKATIGVEFQTQSMEI-------DGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~----~~~---~~~~~~~~~~~~~~~~-------~~~~~~~~i~D~~G~~~~~   79 (222)
                      ..++++.++|+-.+|||||.++|.....    +..   .....+.+.-...+..       .++.+++.++|+||+..+-
T Consensus         5 p~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLI   84 (522)
T KOG0461|consen    5 PSNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLI   84 (522)
T ss_pred             CceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHH
Confidence            3458999999999999999999965432    111   1122222322222222       3456788999999998877


Q ss_pred             hhHHHhhcCCCEEEEEEECCChhhHHHHHHH-HHHHHhcCCCCCcEEEEEeCCCCCcCC--C-CCHHHHHHHHHHc----
Q 040481           80 AVTSAYYRGAVGALIVYDITRRTTFDSISRW-LDELKTHSDTTVARMLVGNKCDLESIR--N-VSTEEGKSLAEAE----  151 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~-~~~i~~~~~~~~p~iiv~nK~Dl~~~~--~-~~~~~~~~~~~~~----  151 (222)
                      ........-.|..++|+|+..+..-..++.+ +..+..     ...+||+||.|...+.  . ...+..+...+.+    
T Consensus        85 RtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~c-----~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~  159 (522)
T KOG0461|consen   85 RTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELLC-----KKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTG  159 (522)
T ss_pred             HHHHhhhheeeeeeEEEehhcccccccchhhhhhhhhc-----cceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcC
Confidence            7766666778999999999887554444332 222222     2347778888865321  1 1122222333222    


Q ss_pred             ---CCeEEEEccCCC----CCHHHHHH
Q 040481          152 ---GLFFMETSALDS----TNVKSAFE  171 (222)
Q Consensus       152 ---~~~~~~~sa~~~----~~i~~~~~  171 (222)
                         +.|++++||.+|    +++.++.+
T Consensus       160 f~g~~PI~~vsa~~G~~~~~~i~eL~e  186 (522)
T KOG0461|consen  160 FDGNSPIVEVSAADGYFKEEMIQELKE  186 (522)
T ss_pred             cCCCCceeEEecCCCccchhHHHHHHH
Confidence               478999999999    55555444

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.27  E-value=8.1e-11  Score=95.88  Aligned_cols=104  Identities=13%  Similarity=0.068  Sum_probs=66.5

Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CH
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV--ST  141 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~--~~  141 (222)
                      ++.+.|+||+|.......   ....+|.++++.+...+..+.....-   +     ..+.-++|+||+|+......  ..
T Consensus       148 g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k~g---i-----~E~aDIiVVNKaDl~~~~~a~~~~  216 (332)
T PRK09435        148 GYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIKKG---I-----MELADLIVINKADGDNKTAARRAA  216 (332)
T ss_pred             CCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHHhh---h-----hhhhheEEeehhcccchhHHHHHH
Confidence            467889999997744322   35679999999876555544333221   1     11233899999998753211  11


Q ss_pred             HHHHHHHHH-------cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          142 EEGKSLAEA-------EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       142 ~~~~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      .+.......       +..+++.+||.++.|++++++.+.+++.
T Consensus       217 ~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        217 AEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             HHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            122222221       2367999999999999999998887644

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.27  E-value=2.8e-11  Score=102.32  Aligned_cols=158  Identities=22%  Similarity=0.202  Sum_probs=107.5

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC-----------------------------CCccceeEEEEEEEEC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-----------------------------KATIGVEFQTQSMEID   61 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~   61 (222)
                      ......+.++++|+..+|||||.-+|+........                             ....|+...+....++
T Consensus       172 ~~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fe  251 (603)
T KOG0458|consen  172 SDPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFE  251 (603)
T ss_pred             cCCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEe
Confidence            34446789999999999999999888553211110                             1123566666677777


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---HHHH--HHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---FDSI--SRWLDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~~~~--~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                      .....+.++|+||+..|-.........+|+.|+|+|++....   |+..  .+.+..+.+..+ --.++|++||+|+.+.
T Consensus       252 s~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg-i~qlivaiNKmD~V~W  330 (603)
T KOG0458|consen  252 SKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG-ISQLIVAINKMDLVSW  330 (603)
T ss_pred             cCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC-cceEEEEeecccccCc
Confidence            777889999999999998888888899999999999986531   2211  112222333322 2355777999999886


Q ss_pred             CCCCHHHHH----HHH-HHc-----CCeEEEEccCCCCCHHHH
Q 040481          137 RNVSTEEGK----SLA-EAE-----GLFFMETSALDSTNVKSA  169 (222)
Q Consensus       137 ~~~~~~~~~----~~~-~~~-----~~~~~~~sa~~~~~i~~~  169 (222)
                      .+-..+++.    .|. +..     .+.|++||+..|+|+...
T Consensus       331 sq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  331 SQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             cHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            665555553    233 222     346999999999986543

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.25  E-value=4.4e-10  Score=91.24  Aligned_cols=85  Identities=19%  Similarity=0.152  Sum_probs=61.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC----------------eEEEEEEEeCCCc----
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG----------------KEVKAQIWDTAGQ----   75 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~i~D~~G~----   75 (222)
                      .+++.|+|.|+||||||+|+++.........|.++++-....+.+..                ....+.++|++|.    
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            47899999999999999999999886555666666554444333321                2356889999992    


Q ss_pred             ---chhhhhHHHhhcCCCEEEEEEECCC
Q 040481           76 ---ERFRAVTSAYYRGAVGALIVYDITR  100 (222)
Q Consensus        76 ---~~~~~~~~~~~~~~d~vi~v~d~~~  100 (222)
                         +.+.....+.++.+|+++-|+++.+
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f~  109 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCFG  109 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEecC
Confidence               2233345566899999999999974

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.23  E-value=2.2e-11  Score=94.41  Aligned_cols=173  Identities=17%  Similarity=0.186  Sum_probs=93.7

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCc-------c-----ceeEEEEE--------------------
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKAT-------I-----GVEFQTQS--------------------   57 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~-------~-----~~~~~~~~--------------------   57 (222)
                      +....+.+-|+++|..|+|||||+++|..........|.       .     +..+.+..                    
T Consensus        13 ~~~~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~   92 (366)
T KOG1532|consen   13 SGAIQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIV   92 (366)
T ss_pred             cccccCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchh
Confidence            445666788999999999999999999654322111110       0     00000000                    


Q ss_pred             ----------------EEECCeEEEEEEEeCCCcchh------hhhHHHhhcCC--CEEEEEEECCChhh-HHHHHHHHH
Q 040481           58 ----------------MEIDGKEVKAQIWDTAGQERF------RAVTSAYYRGA--VGALIVYDITRRTT-FDSISRWLD  112 (222)
Q Consensus        58 ----------------~~~~~~~~~~~i~D~~G~~~~------~~~~~~~~~~~--d~vi~v~d~~~~~s-~~~~~~~~~  112 (222)
                                      +.-....+...++||||+-+.      ...+...+...  -++++|+|.....+ -..+...+-
T Consensus        93 TsLNLF~tk~dqv~~~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlY  172 (366)
T KOG1532|consen   93 TSLNLFATKFDQVIELIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLY  172 (366)
T ss_pred             hhHHHHHHHHHHHHHHHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHH
Confidence                            000012345779999997431      23333344443  35667777643221 111111111


Q ss_pred             HHHhcCCCCCcEEEEEeCCCCCcCCC----CC----HHHHHH-----------------H-HHHcCCeEEEEccCCCCCH
Q 040481          113 ELKTHSDTTVARMLVGNKCDLESIRN----VS----TEEGKS-----------------L-AEAEGLFFMETSALDSTNV  166 (222)
Q Consensus       113 ~i~~~~~~~~p~iiv~nK~Dl~~~~~----~~----~~~~~~-----------------~-~~~~~~~~~~~sa~~~~~i  166 (222)
                      ...-..+.+.|+|+++||.|+.+...    +.    .+++.+                 + ....++..+-||+.+|.|.
T Consensus       173 AcSilyktklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~  252 (366)
T KOG1532|consen  173 ACSILYKTKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGF  252 (366)
T ss_pred             HHHHHHhccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcH
Confidence            11112235689999999999865211    00    011111                 0 0112566899999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q 040481          167 KSAFEIVIREIYSNVS  182 (222)
Q Consensus       167 ~~~~~~i~~~~~~~~~  182 (222)
                      +++|..+-+.+-+...
T Consensus       253 ddf~~av~~~vdEy~~  268 (366)
T KOG1532|consen  253 DDFFTAVDESVDEYEE  268 (366)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999877776655543

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.23  E-value=2e-10  Score=85.24  Aligned_cols=63  Identities=21%  Similarity=0.216  Sum_probs=44.3

Q ss_pred             EEEEEeCCCcch----hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040481           66 KAQIWDTAGQER----FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC  131 (222)
Q Consensus        66 ~~~i~D~~G~~~----~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~  131 (222)
                      .+.|+|+||...    ....+..+++.+|++|+|.++....+-.....+........   ..+++|.||.
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~---~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDK---SRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTC---SSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCC---CeEEEEEcCC
Confidence            367999999533    34667888899999999999998766454455555554433   2478888984

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>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=99.22  E-value=1.8e-11  Score=95.78  Aligned_cols=110  Identities=17%  Similarity=0.118  Sum_probs=56.3

Q ss_pred             EEEEEeCCCcchhhhhHHHhh--------cCCCEEEEEEECCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481           66 KAQIWDTAGQERFRAVTSAYY--------RGAVGALIVYDITRRTT-FDSISRWLDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~~~~~~--------~~~d~vi~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                      .+.++||||+.++...+....        ...-++++++|.....+ ...+..++-.+......+.|.+.|+||+|+...
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            467999999988755544433        33457888999864332 222333333332222355799999999999752


Q ss_pred             CC-------C------------CHHHHHHHHHHc----CC-eEEEEccCCCCCHHHHHHHHHH
Q 040481          137 RN-------V------------STEEGKSLAEAE----GL-FFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       137 ~~-------~------------~~~~~~~~~~~~----~~-~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ..       .            ........+...    .. .++++|+.+++++.+++..+-+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~  234 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDK  234 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHH
Confidence            10       0            001111122211    23 6999999999999999885544

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.21  E-value=1.9e-10  Score=94.75  Aligned_cols=155  Identities=17%  Similarity=0.088  Sum_probs=105.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCC---CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFN---PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      -|...|+-..|||||+.++.+....   +.....++.+....+.  +.....+.|+|+||++.+-....+.+...|..++
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~--~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alL   79 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYR--KLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALL   79 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEec--cCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEE
Confidence            4678899999999999999887643   2333334444444444  4444478899999999998888888899999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH---HcCCeEEEEccCCCCCHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE---AEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |++++++-.....++ +..+.-..  -...++|+||+|..+..++ .+..++...   ..+.+++.+|+.+|.||+++.+
T Consensus        80 vV~~deGl~~qtgEh-L~iLdllg--i~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~  155 (447)
T COG3276          80 VVAADEGLMAQTGEH-LLILDLLG--IKNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTSAKTGRGIEELKN  155 (447)
T ss_pred             EEeCccCcchhhHHH-HHHHHhcC--CCceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccccccCCCHHHHHH
Confidence            999976644333222 12221111  1133889999999864321 112222222   3457789999999999999999


Q ss_pred             HHHHHHH
Q 040481          172 IVIREIY  178 (222)
Q Consensus       172 ~i~~~~~  178 (222)
                      .|.+..-
T Consensus       156 ~l~~L~~  162 (447)
T COG3276         156 ELIDLLE  162 (447)
T ss_pred             HHHHhhh
Confidence            8888663

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.19  E-value=2.5e-10  Score=84.65  Aligned_cols=150  Identities=16%  Similarity=0.083  Sum_probs=87.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEE-----------------E-EE-EE--C-------------
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQT-----------------Q-SM-EI--D-------------   61 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-----------------~-~~-~~--~-------------   61 (222)
                      .++|.+.|++|||||+|+.+++..........-++.+++.                 . +- -+  +             
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~Di~t~~Da~~l~~~~g~~i~~v~TG~~CH~da~m~~~ai~~l~~   92 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDIYTKEDADRLRKLPGEPIIGVETGKGCHLDASMNLEAIEELVL   92 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEeceeechhhHHHHHhCCCCeeEEeccCCccCCcHHHHHHHHHHHhh
Confidence            5899999999999999999876543222110111111111                 0 00 00  0             


Q ss_pred             -CeEEEEEEEeCCCcchhhhhHHHhhcCCC-EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC
Q 040481           62 -GKEVKAQIWDTAGQERFRAVTSAYYRGAV-GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV  139 (222)
Q Consensus        62 -~~~~~~~i~D~~G~~~~~~~~~~~~~~~d-~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~  139 (222)
                       ...+.+.|++.+|+ .-..   ..+.-.| .-|+|+|++.++-.-  .+-.+.+.      ..=++|+||.||.+....
T Consensus        93 ~~~~~Dll~iEs~GN-L~~~---~sp~L~d~~~v~VidvteGe~~P--~K~gP~i~------~aDllVInK~DLa~~v~~  160 (202)
T COG0378          93 DFPDLDLLFIESVGN-LVCP---FSPDLGDHLRVVVIDVTEGEDIP--RKGGPGIF------KADLLVINKTDLAPYVGA  160 (202)
T ss_pred             cCCcCCEEEEecCcc-eecc---cCcchhhceEEEEEECCCCCCCc--ccCCCcee------EeeEEEEehHHhHHHhCc
Confidence             01134556666661 1111   1112233 678888888874300  00011111      122799999999876666


Q ss_pred             CHHHHHHHHHHc--CCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          140 STEEGKSLAEAE--GLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       140 ~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ..+...+-++..  +++++++|.++|.|++++++++...+
T Consensus       161 dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         161 DLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             cHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            666666666665  57899999999999999999887653

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.19  E-value=1.7e-09  Score=89.26  Aligned_cols=143  Identities=17%  Similarity=0.183  Sum_probs=88.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC----cCC------------CCCCCc---cceeEEE-----EEEE-ECCeEEEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN----EFN------------PHSKAT---IGVEFQT-----QSME-IDGKEVKAQI   69 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~----~~~------------~~~~~~---~~~~~~~-----~~~~-~~~~~~~~~i   69 (222)
                      ..+-|.++|+.++|||||+|+|.+.    ...            +.+.+.   ++++-..     ..+. .++....+.+
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~Vrl   95 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRL   95 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEE
Confidence            3578999999999999999999987    322            111111   1222111     1222 2455678899


Q ss_pred             EeCCCcch--------hhh---------------------hHHHhhc-CCCEEEEEE-ECC----ChhhHHHH-HHHHHH
Q 040481           70 WDTAGQER--------FRA---------------------VTSAYYR-GAVGALIVY-DIT----RRTTFDSI-SRWLDE  113 (222)
Q Consensus        70 ~D~~G~~~--------~~~---------------------~~~~~~~-~~d~vi~v~-d~~----~~~s~~~~-~~~~~~  113 (222)
                      +||+|...        -..                     -+...+. .+|+.|+|. |.+    .++.+... .+++.+
T Consensus        96 IDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e  175 (492)
T TIGR02836        96 VDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE  175 (492)
T ss_pred             EECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH
Confidence            99999211        111                     1334445 788888888 764    12223333 556677


Q ss_pred             HHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCC
Q 040481          114 LKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALD  162 (222)
Q Consensus       114 i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  162 (222)
                      +..   .++|+++|+|+.|-...  ...+...++...++++++.+|+.+
T Consensus       176 Lk~---~~kPfiivlN~~dp~~~--et~~l~~~l~eky~vpvl~v~c~~  219 (492)
T TIGR02836       176 LKE---LNKPFIILLNSTHPYHP--ETEALRQELEEKYDVPVLAMDVES  219 (492)
T ss_pred             HHh---cCCCEEEEEECcCCCCc--hhHHHHHHHHHHhCCceEEEEHHH
Confidence            766   45799999999994321  244445566677888877777654

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.18  E-value=4.5e-10  Score=97.42  Aligned_cols=124  Identities=15%  Similarity=0.115  Sum_probs=74.8

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeEEEEEEEeCCCcchhh-------h-
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-------A-   80 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~-   80 (222)
                      ..+.+..++|+++|.+|+||||++|+|++........ ...++.........++  ..+.++||||.....       . 
T Consensus       112 ~~~LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeI  189 (763)
T TIGR00993       112 QDPLDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKI  189 (763)
T ss_pred             ccccCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECC--ceEEEEECCCCCccccchHHHHHH
Confidence            3455667899999999999999999999976433222 1222222222223343  567899999954321       1 


Q ss_pred             --hHHHhhc--CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCC--CCcEEEEEeCCCCCc
Q 040481           81 --VTSAYYR--GAVGALIVYDITRRTTFDSISRWLDELKTHSDT--TVARMLVGNKCDLES  135 (222)
Q Consensus        81 --~~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~p~iiv~nK~Dl~~  135 (222)
                        ....++.  .+|+||+|.++........-..+++.+......  -..+|||+|+.|..+
T Consensus       190 Lk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       190 LSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence              1222333  479999999886433221222344444443321  135688899999764

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.18  E-value=9.3e-11  Score=96.32  Aligned_cols=162  Identities=13%  Similarity=0.130  Sum_probs=78.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-Cc--cceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHH-----hh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-AT--IGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSA-----YY   86 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-----~~   86 (222)
                      ..++|+|.|.+|+|||||||+|.|........ ++  ..++.......... .-.+.+||.||..-.......     .+
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~-~pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPK-FPNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCC-CCCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            45899999999999999999997643322111 11  11111111111111 112679999996443222222     34


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC-------cCCCCCHHH----HHHHHHH----c
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE-------SIRNVSTEE----GKSLAEA----E  151 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~-------~~~~~~~~~----~~~~~~~----~  151 (222)
                      ...|.+|++.+-.=.+.  . ..+...+..   .+.|+++|-+|.|..       ..+....+.    +++.+..    .
T Consensus       113 ~~yD~fiii~s~rf~~n--d-v~La~~i~~---~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~  186 (376)
T PF05049_consen  113 YRYDFFIIISSERFTEN--D-VQLAKEIQR---MGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKA  186 (376)
T ss_dssp             GG-SEEEEEESSS--HH--H-HHHHHHHHH---TT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCT
T ss_pred             cccCEEEEEeCCCCchh--h-HHHHHHHHH---cCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHc
Confidence            56788888776432221  1 222333433   457999999999961       112333332    2333322    2


Q ss_pred             C---CeEEEEccCCC--CCHHHHHHHHHHHHHHHhhh
Q 040481          152 G---LFFMETSALDS--TNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       152 ~---~~~~~~sa~~~--~~i~~~~~~i~~~~~~~~~~  183 (222)
                      +   .++|-+|+.+-  .+...+.+.|...+-.++..
T Consensus       187 gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr~  223 (376)
T PF05049_consen  187 GVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHKRH  223 (376)
T ss_dssp             T-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGGHH
T ss_pred             CCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHHHH
Confidence            3   34888998875  44777777777766666553

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=4.5e-10  Score=96.36  Aligned_cols=119  Identities=22%  Similarity=0.307  Sum_probs=86.7

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCc-----------------cceeEEEEEEEE---CCeEEEEEEE
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKAT-----------------IGVEFQTQSMEI---DGKEVKAQIW   70 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~-----------------~~~~~~~~~~~~---~~~~~~~~i~   70 (222)
                      +.+....+|+++|+-.+|||+|+..|.....+..+...                 .++.....++.+   .++.+-++++
T Consensus       123 ~~p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nil  202 (971)
T KOG0468|consen  123 DNPERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNIL  202 (971)
T ss_pred             cCcceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeee
Confidence            45667789999999999999999999776543321111                 122222223333   4577889999


Q ss_pred             eCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040481           71 DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL  133 (222)
Q Consensus        71 D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl  133 (222)
                      ||||+..|.....+.++.+|++++|+|+.++-.+.. +   +.+........|+++|+||.|.
T Consensus       203 DTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-E---r~ikhaiq~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  203 DTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-E---RIIKHAIQNRLPIVVVINKVDR  261 (971)
T ss_pred             cCCCcccchHHHHHHhhhcceEEEEEEcccCceeeH-H---HHHHHHHhccCcEEEEEehhHH
Confidence            999999998888889999999999999999876443 2   2333333456799999999995

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=4.7e-10  Score=87.89  Aligned_cols=172  Identities=17%  Similarity=0.157  Sum_probs=108.3

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcC-------------C-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEF-------------N-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~-------------~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      ...+.++|..+|+-..|||||..+++.--.             . .......++++....+.+.....+.-.+|+||+..
T Consensus         8 r~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaD   87 (394)
T COG0050           8 RTKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHAD   87 (394)
T ss_pred             CCCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHH
Confidence            445678999999999999999998854211             0 01123346677777777766666677999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEE-EeCCCCCcCCCCC---HHHHHHHHHHcC-
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESIRNVS---TEEGKSLAEAEG-  152 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv-~nK~Dl~~~~~~~---~~~~~~~~~~~~-  152 (222)
                      |-.+......+.|+.|+|++++|+.-    .+...-+.-....++|.|++ +||+|+.++.++.   ..+.+++...++ 
T Consensus        88 YvKNMItgAaqmDgAILVVsA~dGpm----PqTrEHiLlarqvGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f  163 (394)
T COG0050          88 YVKNMITGAAQMDGAILVVAATDGPM----PQTREHILLARQVGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGF  163 (394)
T ss_pred             HHHHHhhhHHhcCccEEEEEcCCCCC----CcchhhhhhhhhcCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCC
Confidence            97777777788999999999998642    11111111222345666655 7999998754432   345666666665 


Q ss_pred             ----CeEEEEccCC-CCCHHHHHHHHHHHHHHHhhhhccCC
Q 040481          153 ----LFFMETSALD-STNVKSAFEIVIREIYSNVSRKVLNS  188 (222)
Q Consensus       153 ----~~~~~~sa~~-~~~i~~~~~~i~~~~~~~~~~~~~~s  188 (222)
                          .|++.-||.. .+|-.. ...-+..++......++..
T Consensus       164 ~gd~~Pii~gSal~ale~~~~-~~~~i~eLm~avd~yip~P  203 (394)
T COG0050         164 PGDDTPIIRGSALKALEGDAK-WEAKIEELMDAVDSYIPTP  203 (394)
T ss_pred             CCCCcceeechhhhhhcCCcc-hHHHHHHHHHHHHhcCCCC
Confidence                4466666554 233333 2223333444444444443

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.12  E-value=6.9e-10  Score=90.01  Aligned_cols=103  Identities=17%  Similarity=0.088  Sum_probs=63.2

Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST--  141 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~--  141 (222)
                      ++.+.|+||+|.....   ......+|.++++.....+..   +......+     .++|.++|+||+|+........  
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~~~~e---l~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPGTGDD---LQGIKAGL-----MEIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCCccHH---HHHHHHHH-----hhhccEEEEEcccccchhHHHHHH
Confidence            4677899999964322   134566788888855443332   22222222     2357799999999874322110  


Q ss_pred             HH----HHHHHH---HcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          142 EE----GKSLAE---AEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       142 ~~----~~~~~~---~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ..    ...+..   .+..+++++||+++.|++++++++.+..
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~  237 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHK  237 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHH
Confidence            00    011111   1234699999999999999999988863

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.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.12  E-value=4.5e-10  Score=99.35  Aligned_cols=118  Identities=21%  Similarity=0.228  Sum_probs=86.2

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-----C-----------CCccceeEEEEEEEECCe-EEEEEEEeCCCc
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-----S-----------KATIGVEFQTQSMEIDGK-EVKAQIWDTAGQ   75 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-----~-----------~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~   75 (222)
                      ....-+|.|+|+..+|||||..+|+.......     .           ....++++....+.+... .+.++++|||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGH   86 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGH   86 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCc
Confidence            55667999999999999999999965332111     1           011244455555444444 488999999999


Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      -.|-......++-+|++++|+|+.++-.-..-.-|    ++....++|.++++||+|-.
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~----rqa~~~~vp~i~fiNKmDR~  141 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVW----RQADKYGVPRILFVNKMDRL  141 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHHHHH----HHHhhcCCCeEEEEECcccc
Confidence            99998888889999999999999988553333334    33444668999999999963

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.10  E-value=1.8e-09  Score=86.50  Aligned_cols=142  Identities=18%  Similarity=0.225  Sum_probs=74.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC----------CCccceeEEEEEEEECCeEEEEEEEeCCCcch-------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHS----------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------   77 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------   77 (222)
                      ..++|+|+|.+|+|||||||.|++.......          ..+..+......+.-++..+.+.++||||...       
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~   82 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDC   82 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhh
Confidence            4689999999999999999999987653331          12222333333444477888999999999221       


Q ss_pred             -----------hhhhHH---------HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           78 -----------FRAVTS---------AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        78 -----------~~~~~~---------~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                                 +.....         ..=.++|+++|+++.+... +..  ..+..|+... ..+++|=|+.|+|.....
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~-L~~--~Di~~mk~Ls-~~vNvIPvIaKaD~lt~~  158 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHG-LKP--LDIEFMKRLS-KRVNVIPVIAKADTLTPE  158 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSS-S-H--HHHHHHHHHT-TTSEEEEEESTGGGS-HH
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCcc-chH--HHHHHHHHhc-ccccEEeEEecccccCHH
Confidence                       111100         0114468999999986532 111  1222333333 336788899999974321


Q ss_pred             C--CCHHHHHHHHHHcCCeEEEEcc
Q 040481          138 N--VSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus       138 ~--~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      +  ...+.+..-....++.++....
T Consensus       159 el~~~k~~i~~~l~~~~I~~f~f~~  183 (281)
T PF00735_consen  159 ELQAFKQRIREDLEENNIKIFDFPE  183 (281)
T ss_dssp             HHHHHHHHHHHHHHHTT--S-----
T ss_pred             HHHHHHHHHHHHHHHcCceeecccc
Confidence            1  1123344445567777665443

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.07  E-value=1.6e-08  Score=82.24  Aligned_cols=129  Identities=18%  Similarity=0.244  Sum_probs=85.8

Q ss_pred             eEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh-------HHHHH---HHHHHHHhcCC-C
Q 040481           52 EFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT-------FDSIS---RWLDELKTHSD-T  120 (222)
Q Consensus        52 ~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s-------~~~~~---~~~~~i~~~~~-~  120 (222)
                      .+....+.+.+  ..+.++|++|+.....-|.+.+..+++||||+++++...       -..+.   +++..+-.... .
T Consensus       184 GI~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~  261 (354)
T KOG0082|consen  184 GIVEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFA  261 (354)
T ss_pred             CeeEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccc
Confidence            34444444444  667899999999999999999999999999999987532       12222   23333333332 5


Q ss_pred             CCcEEEEEeCCCCCcC--------------CC-CCHHHHHHHHHHc----------CCeEEEEccCCCCCHHHHHHHHHH
Q 040481          121 TVARMLVGNKCDLESI--------------RN-VSTEEGKSLAEAE----------GLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       121 ~~p~iiv~nK~Dl~~~--------------~~-~~~~~~~~~~~~~----------~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ..++|+++||.||-++              .. -..+++..+....          .+.+..+.|.+..+|+.+|....+
T Consensus       262 ~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d  341 (354)
T KOG0082|consen  262 NTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTD  341 (354)
T ss_pred             cCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHH
Confidence            6899999999998211              11 2333443333221          233556789999999999998888


Q ss_pred             HHHHHhh
Q 040481          176 EIYSNVS  182 (222)
Q Consensus       176 ~~~~~~~  182 (222)
                      .+.....
T Consensus       342 ~Ii~~nl  348 (354)
T KOG0082|consen  342 TIIQNNL  348 (354)
T ss_pred             HHHHHHH
Confidence            7776543

>smart00053 DYNc Dynamin, GTPase

Probab=99.06  E-value=3.1e-09  Score=83.00  Aligned_cols=68  Identities=13%  Similarity=0.104  Sum_probs=43.2

Q ss_pred             EEEEEEeCCCcch-------------hhhhHHHhhc-CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040481           65 VKAQIWDTAGQER-------------FRAVTSAYYR-GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK  130 (222)
Q Consensus        65 ~~~~i~D~~G~~~-------------~~~~~~~~~~-~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK  130 (222)
                      ..|.++|+||...             ...+...+++ ..+++++|+|+.....-....++.+.+   .+.+.|+++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~l---d~~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEV---DPQGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHH---HHcCCcEEEEEEC
Confidence            4578999999531             1234556777 456899999986543222222222333   3356799999999


Q ss_pred             CCCCc
Q 040481          131 CDLES  135 (222)
Q Consensus       131 ~Dl~~  135 (222)
                      .|..+
T Consensus       202 ~D~~~  206 (240)
T smart00053      202 LDLMD  206 (240)
T ss_pred             CCCCC
Confidence            99864

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.00  E-value=4.3e-10  Score=89.53  Aligned_cols=55  Identities=18%  Similarity=0.158  Sum_probs=39.7

Q ss_pred             CcEEEEEeCCCCCcCCCCCHHHHHHHHHH--cCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          122 VARMLVGNKCDLESIRNVSTEEGKSLAEA--EGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       122 ~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      .+-++|+||+|+.+......+...+....  .+++++++||++|+|++++++||..+
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            45599999999975322233333333433  35789999999999999999998764

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.98  E-value=6.7e-09  Score=83.91  Aligned_cols=126  Identities=17%  Similarity=0.185  Sum_probs=87.2

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeE------------------------
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKE------------------------   64 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~------------------------   64 (222)
                      ....+..+-|+++|+-..||||||+.|+...++..+. |..++++.+..+..+.++                        
T Consensus        52 d~dfd~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~a  131 (532)
T KOG1954|consen   52 DPDFDAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNA  131 (532)
T ss_pred             CcccccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHH
Confidence            3456667889999999999999999999999887655 555556666555443221                        


Q ss_pred             ---------------EEEEEEeCCCcc-----------hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcC
Q 040481           65 ---------------VKAQIWDTAGQE-----------RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS  118 (222)
Q Consensus        65 ---------------~~~~i~D~~G~~-----------~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~  118 (222)
                                     -.+.++||||.-           .|.....=|..++|.+|++||+...+--++..+.+..++.  
T Consensus       132 flnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG--  209 (532)
T KOG1954|consen  132 FLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKG--  209 (532)
T ss_pred             HHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhC--
Confidence                           146799999931           1334455678899999999999765543333444444433  


Q ss_pred             CCCCcEEEEEeCCCCCcCCC
Q 040481          119 DTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus       119 ~~~~p~iiv~nK~Dl~~~~~  138 (222)
                       ..-.+-||.||.|.++..+
T Consensus       210 -~EdkiRVVLNKADqVdtqq  228 (532)
T KOG1954|consen  210 -HEDKIRVVLNKADQVDTQQ  228 (532)
T ss_pred             -CcceeEEEeccccccCHHH
Confidence             3345679999999876444

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.98  E-value=8.2e-09  Score=85.05  Aligned_cols=131  Identities=19%  Similarity=0.223  Sum_probs=91.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc--CcCCC--------CC----------CCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR--NEFNP--------HS----------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~--~~~~~--------~~----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      ..+|+-+|.+|||||-..|+-  +.+..        ..          ....|+.+....+.++..+..+++.|||||+.
T Consensus        14 TFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPGHeD   93 (528)
T COG4108          14 TFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPGHED   93 (528)
T ss_pred             ceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCCccc
Confidence            568899999999999988842  11100        00          11135666666666776778899999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF  154 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  154 (222)
                      |..-+-..+..+|..+.|+|+..+-.    .+-++.++-....++|++-.+||.|-...  -+.+...+....+++.
T Consensus        94 FSEDTYRtLtAvDsAvMVIDaAKGiE----~qT~KLfeVcrlR~iPI~TFiNKlDR~~r--dP~ELLdEiE~~L~i~  164 (528)
T COG4108          94 FSEDTYRTLTAVDSAVMVIDAAKGIE----PQTLKLFEVCRLRDIPIFTFINKLDREGR--DPLELLDEIEEELGIQ  164 (528)
T ss_pred             cchhHHHHHHhhheeeEEEecccCcc----HHHHHHHHHHhhcCCceEEEeeccccccC--ChHHHHHHHHHHhCcc
Confidence            98888888899999999999987743    23333333334477999999999996543  3344555555555544

>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=98.97  E-value=5.8e-10  Score=86.60  Aligned_cols=150  Identities=21%  Similarity=0.181  Sum_probs=86.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcC-----------CCCCCCcc---------------ceeEEEEEEEECC------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEF-----------NPHSKATI---------------GVEFQTQSMEIDG------   62 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~-----------~~~~~~~~---------------~~~~~~~~~~~~~------   62 (222)
                      +.+.|.|-|+||+|||||+++|...-.           ++.++.+-               ....+...+--.+      
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            457999999999999999999844211           11111110               1123333332222      


Q ss_pred             ------------eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040481           63 ------------KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK  130 (222)
Q Consensus        63 ------------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK  130 (222)
                                  -++.+.|++|.|-.+....   ...-+|.+++|....-++..+.+..-+-++        +=++|+||
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE~~---I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi--------aDi~vVNK  176 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSEVD---IADMADTVVLVLVPGLGDEIQAIKAGIMEI--------ADIFVVNK  176 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHHHH---HHTTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE-
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccHHH---HHHhcCeEEEEecCCCccHHHHHhhhhhhh--------ccEEEEeC
Confidence                        2356778888885554432   356689999999998877655555444444        22899999


Q ss_pred             CCCCcCCCCCHHHHHHHHH-------HcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          131 CDLESIRNVSTEEGKSLAE-------AEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       131 ~Dl~~~~~~~~~~~~~~~~-------~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      .|....+... .+.+....       .+..+++.+||.++.|++++++.|.++
T Consensus       177 aD~~gA~~~~-~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~  228 (266)
T PF03308_consen  177 ADRPGADRTV-RDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEH  228 (266)
T ss_dssp             -SHHHHHHHH-HHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             CChHHHHHHH-HHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            9964322111 11121111       134679999999999999999877764

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.95  E-value=1.2e-08  Score=80.55  Aligned_cols=154  Identities=21%  Similarity=0.147  Sum_probs=95.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcC-----------CCCCCCccc---------------eeEEEEEEEE--------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEF-----------NPHSKATIG---------------VEFQTQSMEI--------   60 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~-----------~~~~~~~~~---------------~~~~~~~~~~--------   60 (222)
                      +...|.|-|.||+|||||+..|...-.           ++.++.+-|               ...++..+.-        
T Consensus        50 ~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGlS  129 (323)
T COG1703          50 NAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGLS  129 (323)
T ss_pred             CCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchhhh
Confidence            346899999999999999999844211           222222210               1112211111        


Q ss_pred             ----------CCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040481           61 ----------DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK  130 (222)
Q Consensus        61 ----------~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK  130 (222)
                                +.-++.+.|++|.|-.+.+..   ....+|.+++|.=..-+...+.+..-+-++-.        ++|+||
T Consensus       130 ~at~~~i~~ldAaG~DvIIVETVGvGQsev~---I~~~aDt~~~v~~pg~GD~~Q~iK~GimEiaD--------i~vINK  198 (323)
T COG1703         130 RATREAIKLLDAAGYDVIIVETVGVGQSEVD---IANMADTFLVVMIPGAGDDLQGIKAGIMEIAD--------IIVINK  198 (323)
T ss_pred             HHHHHHHHHHHhcCCCEEEEEecCCCcchhH---HhhhcceEEEEecCCCCcHHHHHHhhhhhhhh--------eeeEec
Confidence                      113467789999987665543   35568999999888877776666555544433        899999


Q ss_pred             CCCCcCCCCCHHH--HHHHH------HHcCCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          131 CDLESIRNVSTEE--GKSLA------EAEGLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       131 ~Dl~~~~~~~~~~--~~~~~------~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      .|......--.+.  +..+.      ..+..+++.++|.+|+|++++++.+.++...
T Consensus       199 aD~~~A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~  255 (323)
T COG1703         199 ADRKGAEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKF  255 (323)
T ss_pred             cChhhHHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHH
Confidence            9954311111110  11111      1234679999999999999999987775443

>cd01855 YqeH YqeH

Probab=98.94  E-value=8.9e-09  Score=78.04  Aligned_cols=96  Identities=19%  Similarity=0.090  Sum_probs=66.5

Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HH
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EA  150 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~  150 (222)
                      ..+...+..+++.+|++++|+|+.+...     .|...+... ..+.|+++|+||+|+.... ...+....+.     ..
T Consensus        22 ~~~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~-~~~~~~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~   94 (190)
T cd01855          22 DFILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLF-GGNNPVILVGNKIDLLPKD-KNLVRIKNWLRAKAAAG   94 (190)
T ss_pred             HHHHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHh-cCCCcEEEEEEchhcCCCC-CCHHHHHHHHHHHHHhh
Confidence            3357788889999999999999987642     122222222 2457999999999996532 2333333333     22


Q ss_pred             cCC---eEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          151 EGL---FFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       151 ~~~---~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      .+.   .++++||+++.|++++++.+.+.+.
T Consensus        95 ~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          95 LGLKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             cCCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            333   5899999999999999998887653

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>cd01859 MJ1464 MJ1464

Probab=98.91  E-value=4.5e-09  Score=77.09  Aligned_cols=94  Identities=19%  Similarity=0.112  Sum_probs=63.6

Q ss_pred             hhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEE
Q 040481           79 RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMET  158 (222)
Q Consensus        79 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  158 (222)
                      ..+..+.++.+|++|+|+|+.++..... ..+...+.   ..+.|+++|+||+|+.+....  .....+....+.+++.+
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~i   76 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVYV   76 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEEE
Confidence            4566778888999999999987643221 12222222   235799999999998532111  11112334456789999


Q ss_pred             ccCCCCCHHHHHHHHHHHHH
Q 040481          159 SALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ||+++.|++++++.+.+.+.
T Consensus        77 Sa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          77 SAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             EccccccHHHHHHHHHHHHh
Confidence            99999999999998877653

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.88  E-value=1.9e-08  Score=82.95  Aligned_cols=91  Identities=18%  Similarity=0.139  Sum_probs=67.3

Q ss_pred             hHHHhhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEc
Q 040481           81 VTSAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~s  159 (222)
                      +.+..+.++|.+++|+|+.++. ....+..|+..+..   .++|+++|+||+||......  +........+++.++.+|
T Consensus        82 L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~iS  156 (352)
T PRK12289         82 LDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLFIS  156 (352)
T ss_pred             eechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEEEE
Confidence            3344589999999999998875 45566777776643   45899999999999642221  122233346788999999


Q ss_pred             cCCCCCHHHHHHHHHHH
Q 040481          160 ALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~  176 (222)
                      |.++.|+++++..+...
T Consensus       157 A~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        157 VETGIGLEALLEQLRNK  173 (352)
T ss_pred             cCCCCCHHHHhhhhccc
Confidence            99999999999887654

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.88  E-value=4.4e-09  Score=83.59  Aligned_cols=155  Identities=21%  Similarity=0.178  Sum_probs=96.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc---------chhhhhHHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ---------ERFRAVTSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~   84 (222)
                      ....-|.++|-.++|||||+++|++-...+...-..+.+........... ..+.+.||.|-         ..|.. +..
T Consensus       176 ~s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg-~~vlltDTvGFisdLP~~LvaAF~A-TLe  253 (410)
T KOG0410|consen  176 ESSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSG-NFVLLTDTVGFISDLPIQLVAAFQA-TLE  253 (410)
T ss_pred             CCCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCC-cEEEEeechhhhhhCcHHHHHHHHH-HHH
Confidence            34568999999999999999999965554433333333333333434332 23568899982         22333 334


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEE----EEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM----LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i----iv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      ....+|.++-|.|++++.--......+..+....-...|.+    =|=||.|...... .       ...++  -+.+||
T Consensus       254 eVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~-e-------~E~n~--~v~isa  323 (410)
T KOG0410|consen  254 EVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEV-E-------EEKNL--DVGISA  323 (410)
T ss_pred             HHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccC-c-------cccCC--cccccc
Confidence            46789999999999999754444555555555443333433    3457777653211 1       11122  577899


Q ss_pred             CCCCCHHHHHHHHHHHHHHH
Q 040481          161 LDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~~~~~  180 (222)
                      .+|.|++++.+.+-.++...
T Consensus       324 ltgdgl~el~~a~~~kv~~~  343 (410)
T KOG0410|consen  324 LTGDGLEELLKAEETKVASE  343 (410)
T ss_pred             ccCccHHHHHHHHHHHhhhh
Confidence            99999999988666655543

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.85  E-value=1.7e-08  Score=81.39  Aligned_cols=88  Identities=17%  Similarity=0.092  Sum_probs=68.4

Q ss_pred             HHhhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccC
Q 040481           83 SAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSAL  161 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  161 (222)
                      ...+.++|.+++|+|+.++. ++..+.+|+..+..   .++|+++|+||+||.+..  .......+....+.+++.+||+
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~~--~~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDDE--EEELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCChH--HHHHHHHHHHhCCCeEEEEECC
Confidence            44588999999999999988 88888888887765   357999999999996531  1112233345578899999999


Q ss_pred             CCCCHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIR  175 (222)
Q Consensus       162 ~~~~i~~~~~~i~~  175 (222)
                      ++.|+++++..+..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999999887654

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.84  E-value=1.2e-07  Score=76.90  Aligned_cols=139  Identities=17%  Similarity=0.226  Sum_probs=84.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC----------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-----
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH----------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-----   78 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----   78 (222)
                      ...++|+++|++|.|||||+|.|++......          ..+++.+......+.-++..+.+.++||||-..+     
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~  100 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSK  100 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccc
Confidence            4468999999999999999999988743222          1233344455555555777888999999993221     


Q ss_pred             ---------hhhHHHhh--------------cCCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           79 ---------RAVTSAYY--------------RGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        79 ---------~~~~~~~~--------------~~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                               ......++              .++++++|.+..+... +..+ .+.+..+...    +-+|=|+.|+|.-
T Consensus       101 ~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~-l~~~DIe~Mk~ls~~----vNlIPVI~KaD~l  175 (373)
T COG5019         101 CWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHG-LKPLDIEAMKRLSKR----VNLIPVIAKADTL  175 (373)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCC-CCHHHHHHHHHHhcc----cCeeeeeeccccC
Confidence                     11111111              3467899998875432 1222 2233333322    3456678999974


Q ss_pred             cC--CCCCHHHHHHHHHHcCCeEEE
Q 040481          135 SI--RNVSTEEGKSLAEAEGLFFME  157 (222)
Q Consensus       135 ~~--~~~~~~~~~~~~~~~~~~~~~  157 (222)
                      -.  ...-.+.+.+....+++++|.
T Consensus       176 T~~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         176 TDDELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             CHHHHHHHHHHHHHHHHHhCCceeC
Confidence            22  222234556667778898885

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.83  E-value=3.2e-08  Score=75.74  Aligned_cols=164  Identities=18%  Similarity=0.210  Sum_probs=98.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh---hHHHhhcCCCEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA---VTSAYYRGAVGA   92 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~v   92 (222)
                      .++|+++|...+|||++-+.......+.+...-..+. ....-.+.+.-+.+.+||.||+..+..   -....++.+-++
T Consensus        27 kp~ilLMG~rRsGKsSI~KVVFhkMsPneTlflESTs-ki~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gAL  105 (347)
T KOG3887|consen   27 KPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTS-KITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGAL  105 (347)
T ss_pred             CceEEEEeecccCcchhhheeeeccCCCceeEeeccC-cccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeE
Confidence            3679999999999999988776654333211100000 000111223456789999999765421   245678999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCC-cCCCCCHHH-H-----HHHHH----HcCCeEEEEc
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHS--DTTVARMLVGNKCDLE-SIRNVSTEE-G-----KSLAE----AEGLFFMETS  159 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~iiv~nK~Dl~-~~~~~~~~~-~-----~~~~~----~~~~~~~~~s  159 (222)
                      |||+|+.+.. ++.+..+...+...-  +..+.+=+.+.|.|.. ++..+..+. +     .++++    ...+.|.-+|
T Consensus       106 ifvIDaQddy-~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LTS  184 (347)
T KOG3887|consen  106 IFVIDAQDDY-MEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLTS  184 (347)
T ss_pred             EEEEechHHH-HHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEee
Confidence            9999997753 233333333333322  2557777889999964 322222110 1     11111    1235577788


Q ss_pred             cCCCCCHHHHHHHHHHHHHHHhh
Q 040481          160 ALDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      ..+.. |-+.|.++++++..+.+
T Consensus       185 IyDHS-IfEAFSkvVQkLipqLp  206 (347)
T KOG3887|consen  185 IYDHS-IFEAFSKVVQKLIPQLP  206 (347)
T ss_pred             ecchH-HHHHHHHHHHHHhhhch
Confidence            88754 99999999998887755

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.82  E-value=2.6e-07  Score=71.28  Aligned_cols=90  Identities=23%  Similarity=0.189  Sum_probs=65.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-------hhhHHH
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-------RAVTSA   84 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~   84 (222)
                      .+...-+|+++|-|.+|||||+..++.-.........++.+.....+.+++..  +++.|.||.-+-       .....+
T Consensus        58 ~KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~ga~--IQllDLPGIieGAsqgkGRGRQvia  135 (364)
T KOG1486|consen   58 LKSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNGAN--IQLLDLPGIIEGASQGKGRGRQVIA  135 (364)
T ss_pred             eccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecCce--EEEecCcccccccccCCCCCceEEE
Confidence            44556799999999999999999997755444434444667777777788766  459999995332       122334


Q ss_pred             hhcCCCEEEEEEECCChhh
Q 040481           85 YYRGAVGALIVYDITRRTT  103 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s  103 (222)
                      ..+.+|.++.|.|++..+.
T Consensus       136 vArtaDlilMvLDatk~e~  154 (364)
T KOG1486|consen  136 VARTADLILMVLDATKSED  154 (364)
T ss_pred             EeecccEEEEEecCCcchh
Confidence            5678899999999987654

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.80  E-value=3.4e-07  Score=77.08  Aligned_cols=124  Identities=14%  Similarity=0.168  Sum_probs=78.8

Q ss_pred             eEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh----------HHHHHHHHHHHHhcC-CC
Q 040481           52 EFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT----------FDSISRWLDELKTHS-DT  120 (222)
Q Consensus        52 ~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s----------~~~~~~~~~~i~~~~-~~  120 (222)
                      .+....+.++ ....+.++|++|+.....-|..++..+++||||+++++-..          +......+..+.... -.
T Consensus       224 Gi~e~~f~~~-~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~  302 (389)
T PF00503_consen  224 GITEIDFNFS-GSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFK  302 (389)
T ss_dssp             SEEEEEEEE--TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGT
T ss_pred             CeeEEEEEee-cccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccc
Confidence            3444444441 23557799999999999999999999999999999875321          333333444443332 25


Q ss_pred             CCcEEEEEeCCCCCc-----CC-------------CCCHHHHHHHHHHc------------CCeEEEEccCCCCCHHHHH
Q 040481          121 TVARMLVGNKCDLES-----IR-------------NVSTEEGKSLAEAE------------GLFFMETSALDSTNVKSAF  170 (222)
Q Consensus       121 ~~p~iiv~nK~Dl~~-----~~-------------~~~~~~~~~~~~~~------------~~~~~~~sa~~~~~i~~~~  170 (222)
                      ..|++|++||.|+-.     ..             .-..+.+..+....            .+.+..++|.+..++..+|
T Consensus       303 ~~~iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~  382 (389)
T PF00503_consen  303 NTPIILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVF  382 (389)
T ss_dssp             TSEEEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHH
T ss_pred             cCceEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHH
Confidence            789999999999611     00             02334444444321            1235578888888888888


Q ss_pred             HHHHHH
Q 040481          171 EIVIRE  176 (222)
Q Consensus       171 ~~i~~~  176 (222)
                      ..+.+.
T Consensus       383 ~~v~~~  388 (389)
T PF00503_consen  383 NAVKDI  388 (389)
T ss_dssp             HHHHHH
T ss_pred             HHhcCc
Confidence            876653

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>PRK12288 GTPase RsgA; Reviewed

Probab=98.78  E-value=5.4e-08  Score=80.21  Aligned_cols=88  Identities=16%  Similarity=0.126  Sum_probs=67.7

Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC-CHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV-STEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      ..++|.+++|+++....++..+..|+..+..   .++|++||+||+||.+.... ............+++++++||+++.
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~  194 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGE  194 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCc
Confidence            4678999999999988899999999876643   45799999999999653221 1122233345678899999999999


Q ss_pred             CHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIRE  176 (222)
Q Consensus       165 ~i~~~~~~i~~~  176 (222)
                      |+++++..+...
T Consensus       195 GideL~~~L~~k  206 (347)
T PRK12288        195 GLEELEAALTGR  206 (347)
T ss_pred             CHHHHHHHHhhC
Confidence            999999887653

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.77  E-value=1.8e-07  Score=76.31  Aligned_cols=162  Identities=15%  Similarity=0.213  Sum_probs=92.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-------CC--CccceeEEEEEEEECCeEEEEEEEeCCCcchh------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-------SK--ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF------   78 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-------~~--~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------   78 (222)
                      ...+.++++|++|.|||||+|.|+...+...       ..  .+..+......+.-++..+.+.++||||-...      
T Consensus        19 G~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~   98 (366)
T KOG2655|consen   19 GFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNC   98 (366)
T ss_pred             CCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCccccccccc
Confidence            3468999999999999999999988754332       11  12233333334444677888999999992211      


Q ss_pred             --------hhhHH-----------Hhhc--CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           79 --------RAVTS-----------AYYR--GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        79 --------~~~~~-----------~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                              +....           ..+.  ++++.+|.+..+... +..+  .+..++... ..+.+|=|+.|+|.....
T Consensus        99 w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghg-L~p~--Di~~Mk~l~-~~vNiIPVI~KaD~lT~~  174 (366)
T KOG2655|consen   99 WRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHG-LKPL--DIEFMKKLS-KKVNLIPVIAKADTLTKD  174 (366)
T ss_pred             chhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCC-CcHh--hHHHHHHHh-ccccccceeeccccCCHH
Confidence                    11111           1122  678999999975431 1111  122222222 335667788999974322


Q ss_pred             --CCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHHHhh
Q 040481          138 --NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       138 --~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                        ..-...+.+-....+++++.......   ++.+....+.+....+
T Consensus       175 El~~~K~~I~~~i~~~nI~vf~fp~~~~---d~~~~~~~~~l~~~~P  218 (366)
T KOG2655|consen  175 ELNQFKKRIRQDIEEHNIKVFDFPTDES---DEELKEEEQDLKSSIP  218 (366)
T ss_pred             HHHHHHHHHHHHHHHcCcceecCCCCcc---hhhhHHHHHHHhhcCC
Confidence              22233455666777888776665544   4444444444554433

>PRK00098 GTPase RsgA; Reviewed

Probab=98.77  E-value=3.7e-08  Score=79.81  Aligned_cols=87  Identities=18%  Similarity=0.158  Sum_probs=65.0

Q ss_pred             hhcCCCEEEEEEECCChhhHHH-HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDS-ISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      ...++|++++|+|+.++.++.. +.+|+..+..   .++|+++|+||+|+.+... ............+.+++++||+++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g  152 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEG  152 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCC
Confidence            4689999999999988876444 4777776654   4579999999999963221 122334455667889999999999


Q ss_pred             CCHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIR  175 (222)
Q Consensus       164 ~~i~~~~~~i~~  175 (222)
                      .|+++++..+..
T Consensus       153 ~gi~~L~~~l~g  164 (298)
T PRK00098        153 EGLDELKPLLAG  164 (298)
T ss_pred             ccHHHHHhhccC
Confidence            999999887643

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.75  E-value=1.4e-07  Score=76.86  Aligned_cols=156  Identities=15%  Similarity=0.102  Sum_probs=97.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC--------------CccceeEEEEEEEECC---------------
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK--------------ATIGVEFQTQSMEIDG---------------   62 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~--------------~~~~~~~~~~~~~~~~---------------   62 (222)
                      ..+..+.|.++|+-..|||||+-+|..+..+...-              ...+.++....+-+++               
T Consensus       113 ~~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~  192 (527)
T COG5258         113 EAPEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEK  192 (527)
T ss_pred             CCCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHH
Confidence            34566899999999999999998887665433211              1112233333333322               


Q ss_pred             ------eEEEEEEEeCCCcchhhhhHH--HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           63 ------KEVKAQIWDTAGQERFRAVTS--AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        63 ------~~~~~~i~D~~G~~~~~~~~~--~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                            ...-+.|+|+.|++.|...+.  .+-...|-.++++.++++-+--. .+   -+--....++|+|++.||+|+.
T Consensus       193 ~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kE---HLgi~~a~~lPviVvvTK~D~~  268 (527)
T COG5258         193 AAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KE---HLGIALAMELPVIVVVTKIDMV  268 (527)
T ss_pred             hHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hH---hhhhhhhhcCCEEEEEEecccC
Confidence                  112467999999999875533  34477899999999999865221 11   1122223668999999999997


Q ss_pred             cCCCCCH--HHHH----------------------HHHHHc---CCeEEEEccCCCCCHHHHHH
Q 040481          135 SIRNVST--EEGK----------------------SLAEAE---GLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus       135 ~~~~~~~--~~~~----------------------~~~~~~---~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +++.+..  +++.                      ..+.+.   -+|+|.+|+.+|+|++-+.+
T Consensus       269 ~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e  332 (527)
T COG5258         269 PDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDE  332 (527)
T ss_pred             cHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHH
Confidence            5432211  1111                      111122   25789999999999886544

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.73  E-value=3.1e-08  Score=71.48  Aligned_cols=54  Identities=24%  Similarity=0.278  Sum_probs=38.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   75 (222)
                      +++++|.+|+|||||+|+|.+........ ..+.+.....+.+++   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~-~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSA-TPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCC-CCCcccceEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999877543222 223344444555544   3679999995

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.70  E-value=2.2e-07  Score=87.92  Aligned_cols=112  Identities=22%  Similarity=0.267  Sum_probs=69.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcCCCCC------CCccceeEEEEEEEECCeEEEEEEEeCCCc----c----hhhhhHHH
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEFNPHS------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQ----E----RFRAVTSA   84 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----~----~~~~~~~~   84 (222)
                      -+|+|++|+|||||+..- +..++...      ....+.+.... +.+.+   ...++|++|.    +    .....|..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~-wwf~~---~avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCD-WWFTD---EAVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccc-eEecC---CEEEEcCCCccccCCCcccccHHHHHH
Confidence            489999999999999875 44432211      11111111111 11222   2449999992    1    12233554


Q ss_pred             hh---------cCCCEEEEEEECCChhh---------HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           85 YY---------RGAVGALIVYDITRRTT---------FDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        85 ~~---------~~~d~vi~v~d~~~~~s---------~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      ++         +..|+||+++|+.+.-.         -..+...+.++.......+||+|++||+|+..
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence            44         45799999999976421         12334456677777778899999999999864

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>TIGR00092 GTP-binding protein YchF

Probab=98.66  E-value=1.3e-07  Score=77.89  Aligned_cols=83  Identities=17%  Similarity=0.037  Sum_probs=60.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcC-CCCCCCccceeEEEEEEEECCe---------------EEEEEEEeCCCcch---
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGK---------------EVKAQIWDTAGQER---   77 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~---   77 (222)
                      +++.|+|.|++|||||+++|++... .....|.++.+-....+.+.+.               ...+.+.|+||...   
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            6899999999999999999999876 4444455555555555555442               23578999999432   


Q ss_pred             ----hhhhHHHhhcCCCEEEEEEECC
Q 040481           78 ----FRAVTSAYYRGAVGALIVYDIT   99 (222)
Q Consensus        78 ----~~~~~~~~~~~~d~vi~v~d~~   99 (222)
                          ........++.+|+++.|+++.
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                2234556789999999999984

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd01858 NGP_1 NGP-1

Probab=98.66  E-value=8.9e-08  Score=70.30  Aligned_cols=56  Identities=18%  Similarity=0.201  Sum_probs=37.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      ..++|+++|.+|+|||||+|+|.+........ ..+++.....+..+.   .+.++||||
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~-~~g~T~~~~~~~~~~---~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAP-IPGETKVWQYITLMK---RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCC-CCCeeEeEEEEEcCC---CEEEEECcC
Confidence            35789999999999999999999865433222 123333333333332   256999998

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.65  E-value=8.5e-08  Score=71.44  Aligned_cols=57  Identities=28%  Similarity=0.405  Sum_probs=39.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      ...++++++|.|++|||||+|+|.+....... +..+++.....+.++.   .+.++||||
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~-~~pg~T~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVG-ATPGVTKSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceec-CCCCeEcceEEEEeCC---CEEEEECcC
Confidence            34589999999999999999999987653322 2223444444444432   467999998

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.65  E-value=1.9e-07  Score=77.71  Aligned_cols=95  Identities=22%  Similarity=0.236  Sum_probs=68.4

Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH----HHHHH
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK----SLAEA  150 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~----~~~~~  150 (222)
                      .+.+..+...+++.++++++|+|+.+..     ..|...+.+.. ...|+++|+||+|+.+ .....+...    +++..
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHHH
Confidence            4567778888889999999999997654     23444444443 2469999999999965 233333333    34556


Q ss_pred             cCC---eEEEEccCCCCCHHHHHHHHHHH
Q 040481          151 EGL---FFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       151 ~~~---~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      .++   .++.+||+++.|+++++..+.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            666   48999999999999999987653

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.61  E-value=2.1e-07  Score=74.64  Aligned_cols=89  Identities=16%  Similarity=0.153  Sum_probs=67.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC---------------eEEEEEEEeCCCcc
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG---------------KEVKAQIWDTAGQE   76 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~i~D~~G~~   76 (222)
                      .....+++.|||.|+||||||+|+|+.........|..+++-....+.+..               ....+++.|++|.-
T Consensus        16 R~~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLv   95 (391)
T KOG1491|consen   16 RDGNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLV   95 (391)
T ss_pred             CCCCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccc
Confidence            334668999999999999999999999988887788888777766666643               23468899999931


Q ss_pred             -------hhhhhHHHhhcCCCEEEEEEECCC
Q 040481           77 -------RFRAVTSAYYRGAVGALIVYDITR  100 (222)
Q Consensus        77 -------~~~~~~~~~~~~~d~vi~v~d~~~  100 (222)
                             .+.......++.+|+++-|+++.+
T Consensus        96 kGAs~G~GLGN~FLs~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen   96 KGASAGEGLGNKFLSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             cCcccCcCchHHHHHhhhhccceeEEEEecC
Confidence                   122334456788999999988754

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.61  E-value=1.1e-07  Score=74.32  Aligned_cols=159  Identities=18%  Similarity=0.137  Sum_probs=91.8

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC-CCccceeEEEEEEEECCeEEEEEEEeCCC----------cchh
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAG----------QERF   78 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~   78 (222)
                      .-+++..++++++|.+++|||+|++.+......... .+..+.......+.+   ...+.++|.||          ...+
T Consensus       130 D~Pk~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v---~~~~~~vDlPG~~~a~y~~~~~~d~  206 (320)
T KOG2486|consen  130 DCPKDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHV---GKSWYEVDLPGYGRAGYGFELPADW  206 (320)
T ss_pred             cCCCCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeec---cceEEEEecCCcccccCCccCcchH
Confidence            345677799999999999999999999886643322 223333333333333   34567999999          1234


Q ss_pred             hhhHHHhhcC---CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----CCHHHHHH----H
Q 040481           79 RAVTSAYYRG---AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN----VSTEEGKS----L  147 (222)
Q Consensus        79 ~~~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~----~~~~~~~~----~  147 (222)
                      ..+...++-+   .--+++.+|++.+-.  ..  ....+.-.....+|..+|+||+|....-.    -....+..    +
T Consensus       207 ~~~t~~Y~leR~nLv~~FLLvd~sv~i~--~~--D~~~i~~~ge~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l  282 (320)
T KOG2486|consen  207 DKFTKSYLLERENLVRVFLLVDASVPIQ--PT--DNPEIAWLGENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGL  282 (320)
T ss_pred             hHhHHHHHHhhhhhheeeeeeeccCCCC--CC--ChHHHHHHhhcCCCeEEeeehhhhhhhccccccCccccceeehhhc
Confidence            4444444422   345677888876532  11  11111112235689999999999642100    00111111    1


Q ss_pred             HH---HcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481          148 AE---AEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       148 ~~---~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ..   .-..+.+-+|+.++.|++.++-.|.+
T Consensus       283 ~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  283 IRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             cccceeccCCceeeecccccCceeeeeehhh
Confidence            11   11244566999999999988654443

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.61  E-value=1.7e-07  Score=75.18  Aligned_cols=150  Identities=16%  Similarity=0.125  Sum_probs=99.1

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCc----------CC---C-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNE----------FN---P-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~----------~~---~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      ....+.++|.-+|+-..|||||-.+++.-.          +.   . ......|+++....+.+.....+.-=.|+||+.
T Consensus        49 ~R~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHA  128 (449)
T KOG0460|consen   49 VRDKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHA  128 (449)
T ss_pred             ccCCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchH
Confidence            445667899999999999999998884421          10   0 011234667777777777666666678999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC---CCHHHHHHHHHHcC-
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN---VSTEEGKSLAEAEG-  152 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~---~~~~~~~~~~~~~~-  152 (222)
                      .|-.+....-.+.|+.|+|+.++|+.- ....+.+-..++..-  ..+++.+||.|++++.+   +-+.+++++...++ 
T Consensus       129 DYIKNMItGaaqMDGaILVVaatDG~M-PQTrEHlLLArQVGV--~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf  205 (449)
T KOG0460|consen  129 DYIKNMITGAAQMDGAILVVAATDGPM-PQTREHLLLARQVGV--KHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGF  205 (449)
T ss_pred             HHHHHhhcCccccCceEEEEEcCCCCC-cchHHHHHHHHHcCC--ceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCC
Confidence            997776666788899999999999753 222333333344332  23355589999985443   23345667766664 


Q ss_pred             ----CeEEEEc---cCCC
Q 040481          153 ----LFFMETS---ALDS  163 (222)
Q Consensus       153 ----~~~~~~s---a~~~  163 (222)
                          +|++.=|   |..|
T Consensus       206 ~Gd~~PvI~GSAL~ALeg  223 (449)
T KOG0460|consen  206 DGDNTPVIRGSALCALEG  223 (449)
T ss_pred             CCCCCCeeecchhhhhcC
Confidence                5676544   5555

>cd01858 NGP_1 NGP-1

Probab=98.61  E-value=1.7e-07  Score=68.75  Aligned_cols=90  Identities=16%  Similarity=0.051  Sum_probs=56.6

Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      .+..+|++++|+|+.++..- .-..+...+.. ...+.|+++|+||+|+.+.... ......+........+++||+++.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~-~~~~i~~~l~~-~~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~~   81 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGT-RCKHVEEYLKK-EKPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNPF   81 (157)
T ss_pred             hhhhCCEEEEEEECCCCccc-cCHHHHHHHHh-ccCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccccc
Confidence            46889999999999887421 11222223322 2345799999999999642211 112222222222335789999999


Q ss_pred             CHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREI  177 (222)
Q Consensus       165 ~i~~~~~~i~~~~  177 (222)
                      |++++++.+.+.+
T Consensus        82 ~~~~L~~~l~~~~   94 (157)
T cd01858          82 GKGSLIQLLRQFS   94 (157)
T ss_pred             cHHHHHHHHHHHH
Confidence            9999988876643

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.60  E-value=1.1e-06  Score=67.43  Aligned_cols=146  Identities=19%  Similarity=0.249  Sum_probs=82.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCC---------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNP---------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------   77 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------   77 (222)
                      ...++|.+||.+|.|||||+|.|.......         ....|+.+......+.-++-.+++.++||||-..       
T Consensus        44 GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~nc  123 (336)
T KOG1547|consen   44 GFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNC  123 (336)
T ss_pred             cCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccch
Confidence            356899999999999999999997644321         1122223333333344466678889999999221       


Q ss_pred             -----------hhhh--------HHHhh--cCCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCC-
Q 040481           78 -----------FRAV--------TSAYY--RGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLE-  134 (222)
Q Consensus        78 -----------~~~~--------~~~~~--~~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~-  134 (222)
                                 |...        ....+  .++++++|.+..+- .++..+ .++++.+...    +-++=|+.|+|-. 
T Consensus       124 WePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~v----vNvvPVIakaDtlT  198 (336)
T KOG1547|consen  124 WEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTEV----VNVVPVIAKADTLT  198 (336)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhhh----heeeeeEeeccccc
Confidence                       1111        11122  23567778777753 233333 3344444332    2446667899842 


Q ss_pred             -cCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481          135 -SIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus       135 -~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                       +++..-.+.+++-...+++.+++-.+.+..
T Consensus       199 leEr~~FkqrI~~el~~~~i~vYPq~~fded  229 (336)
T KOG1547|consen  199 LEERSAFKQRIRKELEKHGIDVYPQDSFDED  229 (336)
T ss_pred             HHHHHHHHHHHHHHHHhcCcccccccccccc
Confidence             222222334455556677877776655543

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.57  E-value=3.5e-08  Score=77.97  Aligned_cols=160  Identities=18%  Similarity=0.176  Sum_probs=99.4

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCc---CCCCCCCccceeEEEE--E-EEECC------------------------
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNE---FNPHSKATIGVEFQTQ--S-MEIDG------------------------   62 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~---~~~~~~~~~~~~~~~~--~-~~~~~------------------------   62 (222)
                      .+-+++|.-+|+...||||+++++.+..   |..+...-+++..-+.  . +.+++                        
T Consensus        35 RQATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~  114 (466)
T KOG0466|consen   35 RQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDR  114 (466)
T ss_pred             heeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCccc
Confidence            4567899999999999999999987642   1111111111111110  0 00110                        


Q ss_pred             --------eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCCh----hhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040481           63 --------KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRR----TTFDSISRWLDELKTHSDTTVARMLVGNK  130 (222)
Q Consensus        63 --------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~p~iiv~nK  130 (222)
                              --.++.|+|+||++.+-........-.|++++++..++.    ++-+.+    ..++-..  -..++++-||
T Consensus       115 ~g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHL----aaveiM~--LkhiiilQNK  188 (466)
T KOG0466|consen  115 PGCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHL----AAVEIMK--LKHIIILQNK  188 (466)
T ss_pred             CCCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHH----HHHHHhh--hceEEEEech
Confidence                    113577999999998766554444556888888887652    332222    2221111  1366888999


Q ss_pred             CCCCcCCC--CCHHHHHHHHHH---cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          131 CDLESIRN--VSTEEGKSLAEA---EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       131 ~Dl~~~~~--~~~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      .||..+.+  ...+.+..|...   .++|++++||.-..|++-+.++|+.++-
T Consensus       189 iDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIP  241 (466)
T KOG0466|consen  189 IDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIP  241 (466)
T ss_pred             hhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCC
Confidence            99975433  223445556554   3688999999999999999998888654

>cd01856 YlqF YlqF

Probab=98.55  E-value=2.3e-07  Score=69.17  Aligned_cols=58  Identities=24%  Similarity=0.291  Sum_probs=40.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   75 (222)
                      ...++++++|.+++|||||+++|.+...... ....+++.....+.++   ..+.++||||.
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~~-~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAKV-GNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCceee-cCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            3457999999999999999999998765322 2222334444444443   24679999994

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>cd01855 YqeH YqeH

Probab=98.54  E-value=1.8e-07  Score=70.94  Aligned_cols=55  Identities=18%  Similarity=0.405  Sum_probs=38.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC-------CCCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP-------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      .+++++|.+|+|||||+|+|.+.....       ......+++.....+.++.   .+.++||||
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG  189 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcC
Confidence            589999999999999999998854311       1122234555555655543   367999998

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.53  E-value=2.6e-07  Score=80.81  Aligned_cols=117  Identities=21%  Similarity=0.266  Sum_probs=80.7

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC--------------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNP--------------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      +....-+++++.+-..|||||++.|.......              +...+.|++.....+..-..++.++++|+|||..
T Consensus         5 ~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvd   84 (887)
T KOG0467|consen    5 GSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVD   84 (887)
T ss_pred             CCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccc
Confidence            34455689999999999999999997644211              1123334444444444444667789999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      |.+......+-+|++++++|+.++-.-..    +..+++.-..+...++|+||+|
T Consensus        85 f~sevssas~l~d~alvlvdvvegv~~qt----~~vlrq~~~~~~~~~lvinkid  135 (887)
T KOG0467|consen   85 FSSEVSSASRLSDGALVLVDVVEGVCSQT----YAVLRQAWIEGLKPILVINKID  135 (887)
T ss_pred             hhhhhhhhhhhcCCcEEEEeeccccchhH----HHHHHHHHHccCceEEEEehhh
Confidence            99988888899999999999988754222    2222221123345699999999

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.53  E-value=2.6e-06  Score=74.03  Aligned_cols=118  Identities=14%  Similarity=0.198  Sum_probs=72.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-Ccccee----------------------------------------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVE----------------------------------------   52 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~----------------------------------------   52 (222)
                      +...||++.|..++||||++|+++....-+... +++..-                                        
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            456799999999999999999998766543322 211000                                        


Q ss_pred             --EEEEEEEECCeE-----EEEEEEeCCCc---chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCC
Q 040481           53 --FQTQSMEIDGKE-----VKAQIWDTAGQ---ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTV  122 (222)
Q Consensus        53 --~~~~~~~~~~~~-----~~~~i~D~~G~---~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~  122 (222)
                        .....+..+...     -.+.++|.||.   .....-...+...+|++|||.++.+..+..+. +++......   +.
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek-~Ff~~vs~~---Kp  262 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEK-QFFHKVSEE---KP  262 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHH-HHHHHhhcc---CC
Confidence              000111111110     13568999994   34555666788999999999999888664432 333333222   33


Q ss_pred             cEEEEEeCCCCCc
Q 040481          123 ARMLVGNKCDLES  135 (222)
Q Consensus       123 p~iiv~nK~Dl~~  135 (222)
                      -++|+.||.|...
T Consensus       263 niFIlnnkwDasa  275 (749)
T KOG0448|consen  263 NIFILNNKWDASA  275 (749)
T ss_pred             cEEEEechhhhhc
Confidence            4566678989864

>cd01859 MJ1464 MJ1464

Probab=98.50  E-value=4.1e-07  Score=66.62  Aligned_cols=56  Identities=23%  Similarity=0.286  Sum_probs=38.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      ...+++++|.+++|||||+++|.+.... ...++.+.+.....+..+.   .+.+|||||
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSA-STSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcc-ccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            3578999999999999999999875532 2233444444433333332   477999998

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.50  E-value=4e-06  Score=71.65  Aligned_cols=153  Identities=16%  Similarity=0.160  Sum_probs=88.9

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ....+.+-|+++||||+||||||+.|...-.........| .+    ....++...+.+.++|  .....+ ....+-+|
T Consensus        64 ~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~G-Pi----TvvsgK~RRiTflEcp--~Dl~~m-iDvaKIaD  135 (1077)
T COG5192          64 KDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRG-PI----TVVSGKTRRITFLECP--SDLHQM-IDVAKIAD  135 (1077)
T ss_pred             ccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCC-ce----EEeecceeEEEEEeCh--HHHHHH-HhHHHhhh
Confidence            3445567889999999999999999876432111111111 11    1245677788999999  333333 23456789


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcE-EEEEeCCCCCcCCCCCHHHH-----HHHHHH-cCCeEEEEccC-C
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVAR-MLVGNKCDLESIRNVSTEEG-----KSLAEA-EGLFFMETSAL-D  162 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-iiv~nK~Dl~~~~~~~~~~~-----~~~~~~-~~~~~~~~sa~-~  162 (222)
                      .|++++|.+-+..++. .++++.+..+.   +|. +-|+|+.|+-....-....-     +.|..- .|+.+|.+|-. +
T Consensus       136 LVlLlIdgnfGfEMET-mEFLnil~~HG---mPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~n  211 (1077)
T COG5192         136 LVLLLIDGNFGFEMET-MEFLNILISHG---MPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVEN  211 (1077)
T ss_pred             eeEEEeccccCceehH-HHHHHHHhhcC---CCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEeccccc
Confidence            9999999998755444 34566665544   344 56689999853221111111     122222 37888888854 3


Q ss_pred             CCCHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIR  175 (222)
Q Consensus       163 ~~~i~~~~~~i~~  175 (222)
                      |.--+.-+-.+.+
T Consensus       212 GRYpDreilnLsR  224 (1077)
T COG5192         212 GRYPDREILNLSR  224 (1077)
T ss_pred             CCCCCHHHHHHHH
Confidence            4433333333444

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.48  E-value=2.2e-07  Score=76.41  Aligned_cols=115  Identities=21%  Similarity=0.263  Sum_probs=90.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcC--------CCCC--------CCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEF--------NPHS--------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA   80 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~--------~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   80 (222)
                      -+|.|+..-.+||||.-.+++.-..        ....        ....|+++....++++.+++.++++||||+..|.-
T Consensus        38 rnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf~l  117 (753)
T KOG0464|consen   38 RNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDFRL  117 (753)
T ss_pred             hcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceEEE
Confidence            4789999999999999988854321        1111        12236778888899999999999999999999988


Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .....++-.|+++.|||++.+-.-..+..|    ++..+-++|.++.+||+|...
T Consensus       118 everclrvldgavav~dasagve~qtltvw----rqadk~~ip~~~finkmdk~~  168 (753)
T KOG0464|consen  118 EVERCLRVLDGAVAVFDASAGVEAQTLTVW----RQADKFKIPAHCFINKMDKLA  168 (753)
T ss_pred             EHHHHHHHhcCeEEEEeccCCcccceeeee----hhccccCCchhhhhhhhhhhh
Confidence            888899999999999999887654444455    455667789999999999753

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.48  E-value=6.6e-07  Score=72.23  Aligned_cols=58  Identities=28%  Similarity=0.401  Sum_probs=41.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      ...++++++|.++||||||+|+|.+...... ..+  +++.....+..+.   .+.++||||..
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~--g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRP--GVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCCCC--CeEEEEEEEEeCC---cEEEEECCCcC
Confidence            4568999999999999999999998765332 233  3344444454443   36799999953

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.48  E-value=8.6e-07  Score=64.93  Aligned_cols=84  Identities=15%  Similarity=0.024  Sum_probs=54.8

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |++++|+|+.++.+...  .++.. ......+.|+++|+||+|+.+...+ .+....+....+..++.+||+++.|++++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L   76 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKK   76 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhH
Confidence            78999999988765332  23321 1112245799999999999542211 11122233334566899999999999999


Q ss_pred             HHHHHHHH
Q 040481          170 FEIVIREI  177 (222)
Q Consensus       170 ~~~i~~~~  177 (222)
                      ++.+.+..
T Consensus        77 ~~~i~~~~   84 (155)
T cd01849          77 ESAFTKQT   84 (155)
T ss_pred             HHHHHHHh
Confidence            99887654

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.47  E-value=5.3e-07  Score=72.38  Aligned_cols=58  Identities=26%  Similarity=0.371  Sum_probs=40.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   75 (222)
                      ...++++++|.+|+|||||+|+|.+........ ..+++.....+.++.   .+.++||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~-~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGN-RPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCC-CCCeecceEEEEeCC---CEEEEECCCc
Confidence            345899999999999999999999876433222 223334444555543   3579999996

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.46  E-value=1.7e-06  Score=70.60  Aligned_cols=143  Identities=17%  Similarity=0.172  Sum_probs=79.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCC-------CCC--------------ccceeEEEEEEE-------E------C
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPH-------SKA--------------TIGVEFQTQSME-------I------D   61 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~-------~~~--------------~~~~~~~~~~~~-------~------~   61 (222)
                      .-.|+++|++|+||||++..|.+......       .++              ..+..+......       +      .
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~  193 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAAK  193 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHH
Confidence            35788999999999999998854321100       000              011112111000       0      1


Q ss_pred             CeEEEEEEEeCCCcchhhhh----HHHh--------hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEe
Q 040481           62 GKEVKAQIWDTAGQERFRAV----TSAY--------YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGN  129 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~----~~~~--------~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~n  129 (222)
                      ...+.+.++||||.......    ...+        -...+.+++|+|++.++  +.+.+. .......   -+.-+|+|
T Consensus       194 ~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~a-~~f~~~~---~~~giIlT  267 (318)
T PRK10416        194 ARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQA-KAFHEAV---GLTGIILT  267 (318)
T ss_pred             hCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHHH-HHHHhhC---CCCEEEEE
Confidence            13456889999996432221    1111        12467889999998764  222221 1211111   23478999


Q ss_pred             CCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481          130 KCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus       130 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      |.|....  .  -.+...+...++|+..++  +|++++++-
T Consensus       268 KlD~t~~--~--G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~  302 (318)
T PRK10416        268 KLDGTAK--G--GVVFAIADELGIPIKFIG--VGEGIDDLQ  302 (318)
T ss_pred             CCCCCCC--c--cHHHHHHHHHCCCEEEEe--CCCChhhCc
Confidence            9996532  1  234445677799988887  778887763

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.45  E-value=2e-07  Score=68.09  Aligned_cols=58  Identities=22%  Similarity=0.296  Sum_probs=33.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCC------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNP------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      .++++|++|||||||+|.|.+.....      .......++.....+.++...   .++||||...+
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g~---~iIDTPGf~~~  100 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDGG---YIIDTPGFRSF  100 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTSE---EEECSHHHHT-
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCCc---EEEECCCCCcc
Confidence            68999999999999999998864211      111111112223334443333   49999996554

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.42  E-value=5.1e-07  Score=68.87  Aligned_cols=119  Identities=14%  Similarity=0.163  Sum_probs=77.7

Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh----------HHHHHHHHHHHHhcCC-CCCcEEEEEeCC
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT----------FDSISRWLDELKTHSD-TTVARMLVGNKC  131 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s----------~~~~~~~~~~i~~~~~-~~~p~iiv~nK~  131 (222)
                      ..+.+.+.|++|+..-..-|.+.+.++-.++|++.+++...          +++...++..+..+.. ...++|+..||-
T Consensus       197 ~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKk  276 (359)
T KOG0085|consen  197 QKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKK  276 (359)
T ss_pred             hhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechh
Confidence            44567799999998888889999988888888777665321          2222334444444433 456889999999


Q ss_pred             CCCcC----------------CCCCHHHHHHHHHHc----C-----CeE-EEEccCCCCCHHHHHHHHHHHHHHHh
Q 040481          132 DLESI----------------RNVSTEEGKSLAEAE----G-----LFF-METSALDSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       132 Dl~~~----------------~~~~~~~~~~~~~~~----~-----~~~-~~~sa~~~~~i~~~~~~i~~~~~~~~  181 (222)
                      |+.++                .....+.+++|..+.    +     +.| -.+.|.+..||.-+|...-+.++...
T Consensus       277 DlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~  352 (359)
T KOG0085|consen  277 DLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  352 (359)
T ss_pred             hhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhh
Confidence            98542                123334555665443    2     112 34678888999999987776665443

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.40  E-value=1.1e-05  Score=62.79  Aligned_cols=89  Identities=17%  Similarity=0.068  Sum_probs=54.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC--cCCCCCC-CccceeEEEEEEEEC-CeEEEEEEEeCCCcchh------hhhHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN--EFNPHSK-ATIGVEFQTQSMEID-GKEVKAQIWDTAGQERF------RAVTS   83 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~--~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~------~~~~~   83 (222)
                      .+..-|.|+|++++|||+|+|.|++.  .+..... ..++..+......+. +....+.++||+|....      .....
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~   84 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARL   84 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHH
Confidence            44567899999999999999999998  5532222 222222222222221 23467889999995432      12223


Q ss_pred             HhhcC--CCEEEEEEECCChh
Q 040481           84 AYYRG--AVGALIVYDITRRT  102 (222)
Q Consensus        84 ~~~~~--~d~vi~v~d~~~~~  102 (222)
                      ..+..  ++.+||..+.....
T Consensus        85 ~~l~~llss~~i~n~~~~~~~  105 (224)
T cd01851          85 FALATLLSSVLIYNSWETILG  105 (224)
T ss_pred             HHHHHHHhCEEEEeccCcccH
Confidence            33333  78888888775443

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>cd01856 YlqF YlqF

Probab=98.40  E-value=1.4e-06  Score=64.90  Aligned_cols=97  Identities=15%  Similarity=0.080  Sum_probs=62.4

Q ss_pred             CCcc-hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc
Q 040481           73 AGQE-RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE  151 (222)
Q Consensus        73 ~G~~-~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~  151 (222)
                      ||+. ..-......+.++|.+++|+|+.++..... ..+...+     .+.|+++|+||+|+.+....  ....++....
T Consensus         3 ~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~~~-----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~   74 (171)
T cd01856           3 PGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEKIL-----GNKPRIIVLNKADLADPKKT--KKWLKYFESK   74 (171)
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCC-hhhHhHh-----cCCCEEEEEehhhcCChHHH--HHHHHHHHhc
Confidence            4542 233445677899999999999987653211 1122222     23688999999998532111  1111222333


Q ss_pred             CCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          152 GLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       152 ~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      +..++.+||+++.|++++...+...+
T Consensus        75 ~~~vi~iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          75 GEKVLFVNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHH
Confidence            55689999999999999998887764

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.39  E-value=1.6e-06  Score=62.44  Aligned_cols=77  Identities=18%  Similarity=0.199  Sum_probs=52.4

Q ss_pred             HHhhcCCCEEEEEEECCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           83 SAYYRGAVGALIVYDITRRTTFD--SISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      ...+..+|++++|+|+.++.+..  .+.+|+...   . .+.|+++|+||+|+.+...  .....++....+..++++||
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa   79 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSA   79 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEe
Confidence            45678999999999998876533  334444322   1 4579999999999864222  12333445556778999999


Q ss_pred             CCCCC
Q 040481          161 LDSTN  165 (222)
Q Consensus       161 ~~~~~  165 (222)
                      .++.+
T Consensus        80 ~~~~~   84 (141)
T cd01857          80 LKENA   84 (141)
T ss_pred             cCCCc
Confidence            98764

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.38  E-value=1.1e-06  Score=71.56  Aligned_cols=151  Identities=16%  Similarity=0.264  Sum_probs=92.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC--------------CC---------ccceeEEEEEEEECC---------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHS--------------KA---------TIGVEFQTQSMEIDG---------   62 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~--------------~~---------~~~~~~~~~~~~~~~---------   62 (222)
                      -.++|+++|.-.+|||||+-.|..+..+...              ..         ..+.+--...+++..         
T Consensus       166 ievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e  245 (591)
T KOG1143|consen  166 IEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVE  245 (591)
T ss_pred             eEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHh
Confidence            3579999999999999999888665543221              00         011111111222211         


Q ss_pred             -eEEEEEEEeCCCcchhhhhHHHhhcC--CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC
Q 040481           63 -KEVKAQIWDTAGQERFRAVTSAYYRG--AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV  139 (222)
Q Consensus        63 -~~~~~~i~D~~G~~~~~~~~~~~~~~--~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~  139 (222)
                       ..--+.++|.+|+..|...+...+..  .+...+|+++..+-.+.. .+.+..+..   .++|++++++|+|+.+...+
T Consensus       246 ~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~A---L~iPfFvlvtK~Dl~~~~~~  321 (591)
T KOG1143|consen  246 KSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAA---LNIPFFVLVTKMDLVDRQGL  321 (591)
T ss_pred             hhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHH---hCCCeEEEEEeeccccchhH
Confidence             11246799999999997766554433  578899999988755333 222333333   45899999999999754111


Q ss_pred             ------------------------CHHHHHHHHHH----cCCeEEEEccCCCCCHHHH
Q 040481          140 ------------------------STEEGKSLAEA----EGLFFMETSALDSTNVKSA  169 (222)
Q Consensus       140 ------------------------~~~~~~~~~~~----~~~~~~~~sa~~~~~i~~~  169 (222)
                                              ..+++...+.+    .-.|+|-+|+.+|+|++-+
T Consensus       322 ~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll  379 (591)
T KOG1143|consen  322 KKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLL  379 (591)
T ss_pred             HHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHH
Confidence                                    11222222222    2357899999999997654

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.38  E-value=3.6e-05  Score=55.76  Aligned_cols=146  Identities=18%  Similarity=0.184  Sum_probs=81.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCC-Cc------------------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA-GQ------------------   75 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~-G~------------------   75 (222)
                      ..+||.|-|+||||||||+.++........+.-   ..+....+.-++...-|.++|.. |.                  
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kv---gGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~   80 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKGYKV---GGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYG   80 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCcee---eeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEE
Confidence            458999999999999999998864332111111   12333444456666667777765 31                  


Q ss_pred             ---chhh----hhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH
Q 040481           76 ---ERFR----AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLA  148 (222)
Q Consensus        76 ---~~~~----~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~  148 (222)
                         +.+.    ......+..+|+  +++|---+..|.. .++...+......+.|++.++.+.+-.   .     ..+-.
T Consensus        81 V~v~~le~i~~~al~rA~~~aDv--IIIDEIGpMElks-~~f~~~ve~vl~~~kpliatlHrrsr~---P-----~v~~i  149 (179)
T COG1618          81 VNVEGLEEIAIPALRRALEEADV--IIIDEIGPMELKS-KKFREAVEEVLKSGKPLIATLHRRSRH---P-----LVQRI  149 (179)
T ss_pred             eeHHHHHHHhHHHHHHHhhcCCE--EEEecccchhhcc-HHHHHHHHHHhcCCCcEEEEEecccCC---h-----HHHHh
Confidence               1111    112223344554  4566655532211 456666777777778988888876531   1     11223


Q ss_pred             HHcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          149 EAEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       149 ~~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ...+..++.   .+.+|-+.++..++..+
T Consensus       150 k~~~~v~v~---lt~~NR~~i~~~Il~~L  175 (179)
T COG1618         150 KKLGGVYVF---LTPENRNRILNEILSVL  175 (179)
T ss_pred             hhcCCEEEE---EccchhhHHHHHHHHHh
Confidence            344444443   35566667777666644

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.38  E-value=8.1e-07  Score=72.72  Aligned_cols=60  Identities=23%  Similarity=0.315  Sum_probs=45.0

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      ...++++++|-|+||||||||+|.+....... +.+|++.....+..+..   +.++||||.-.
T Consensus       130 ~~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s-~~PG~Tk~~q~i~~~~~---i~LlDtPGii~  189 (322)
T COG1161         130 KRKIRVGVVGYPNVGKSTLINRLLGKKVAKTS-NRPGTTKGIQWIKLDDG---IYLLDTPGIIP  189 (322)
T ss_pred             ccceEEEEEcCCCCcHHHHHHHHhcccceeeC-CCCceecceEEEEcCCC---eEEecCCCcCC
Confidence            34578999999999999999999998763332 22366677777766653   66999999533

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.34  E-value=2.7e-06  Score=68.32  Aligned_cols=101  Identities=15%  Similarity=0.065  Sum_probs=65.3

Q ss_pred             CCCcch-hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH
Q 040481           72 TAGQER-FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA  150 (222)
Q Consensus        72 ~~G~~~-~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~  150 (222)
                      .|||.. ........+..+|++++|+|+.++.+... ..+...+     .+.|+++|+||+|+.+....  ....++...
T Consensus         4 fpgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~-~~i~~~l-----~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~   75 (276)
T TIGR03596         4 FPGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRN-PMIDEIR-----GNKPRLIVLNKADLADPAVT--KQWLKYFEE   75 (276)
T ss_pred             ChHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCC-hhHHHHH-----CCCCEEEEEEccccCCHHHH--HHHHHHHHH
Confidence            366543 23455677899999999999987654221 1111222     24699999999999642111  111112233


Q ss_pred             cCCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          151 EGLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       151 ~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      .+.+++.+||+++.|+.++.+.+.+.+.+.
T Consensus        76 ~~~~vi~iSa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        76 KGIKALAINAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHHHh
Confidence            456789999999999999988877765443

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.34  E-value=1.4e-06  Score=63.82  Aligned_cols=55  Identities=22%  Similarity=0.263  Sum_probs=37.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      ...+++++|.+++|||||+|+|.+..... ...+.++....  .+.++   ..+.++||||
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~--~~~~~---~~~~liDtPG  154 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQ--EVKLD---NKIKLLDTPG  154 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceE--EEEec---CCEEEEECCC
Confidence            45789999999999999999999865322 22233333332  33333   2367999998

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>PRK14974 cell division protein FtsY; Provisional

Probab=98.32  E-value=5.5e-06  Score=67.98  Aligned_cols=94  Identities=14%  Similarity=0.036  Sum_probs=55.8

Q ss_pred             EEEEEEeCCCcchhhhhH----HHh--hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           65 VKAQIWDTAGQERFRAVT----SAY--YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~----~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                      +.+.++||+|........    ..+  .-..|.+++|+|+..++..-...   ..+....  + .--+|+||.|....-.
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a---~~f~~~~--~-~~giIlTKlD~~~~~G  296 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQA---REFNEAV--G-IDGVILTKVDADAKGG  296 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHH---HHHHhcC--C-CCEEEEeeecCCCCcc
Confidence            457899999965432221    122  12468899999997764322111   1111111  1 2378899999753222


Q ss_pred             CCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481          139 VSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                          .+...+...+.|+..++  +|.+++++.
T Consensus       297 ----~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~  322 (336)
T PRK14974        297 ----AALSIAYVIGKPILFLG--VGQGYDDLI  322 (336)
T ss_pred             ----HHHHHHHHHCcCEEEEe--CCCChhhcc
Confidence                23445556788888776  788888864

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.32  E-value=4.6e-06  Score=61.31  Aligned_cols=63  Identities=16%  Similarity=0.145  Sum_probs=37.2

Q ss_pred             EEEEEEeCCCcchhhhhHHH--------hhcCCCEEEEEEECCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040481           65 VKAQIWDTAGQERFRAVTSA--------YYRGAVGALIVYDITRRTT-FDSISRWLDELKTHSDTTVARMLVGNKCDL  133 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~--------~~~~~d~vi~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl  133 (222)
                      ....++|++|..........        ....+|.+++++|+..... +.....+...+....      +||+||+|+
T Consensus        87 ~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~ad------~ivlnk~dl  158 (158)
T cd03112          87 FDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFAD------RILLNKTDL  158 (158)
T ss_pred             CCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHCC------EEEEecccC
Confidence            45678999996544333222        2345788999999865432 112222333333322      789999996

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.32  E-value=1.2e-05  Score=64.41  Aligned_cols=95  Identities=14%  Similarity=0.048  Sum_probs=56.8

Q ss_pred             EEEEEEEeCCCcchhhhhHH-------Hhh-----cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040481           64 EVKAQIWDTAGQERFRAVTS-------AYY-----RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC  131 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~-------~~~-----~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~  131 (222)
                      .+.+.++||||....+....       ...     ..+|.+++|+|++.+..  .+.. ...+....+   +.-+|+||.
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~--~~~~-~~~f~~~~~---~~g~IlTKl  227 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQN--ALEQ-AKVFNEAVG---LTGIILTKL  227 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHH--HHHH-HHHHHhhCC---CCEEEEEcc
Confidence            36678999999654333221       111     23789999999976532  2222 222222111   347899999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481          132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus       132 Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      |......    .+.......+.|+..++  +|.+++++-
T Consensus       228 De~~~~G----~~l~~~~~~~~Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       228 DGTAKGG----IILSIAYELKLPIKFIG--VGEKIDDLA  260 (272)
T ss_pred             CCCCCcc----HHHHHHHHHCcCEEEEe--CCCChHhCc
Confidence            9754222    34445666788887777  777777653

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.

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.32  E-value=1.7e-05  Score=67.66  Aligned_cols=138  Identities=20%  Similarity=0.272  Sum_probs=86.0

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-C-----CCc------------------------------------
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-S-----KAT------------------------------------   48 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~-----~~~------------------------------------   48 (222)
                      ...++.++|++||+..+|||+.+..+....+.+- +     ..+                                    
T Consensus       303 nt~DhLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e  382 (980)
T KOG0447|consen  303 NTQDHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHE  382 (980)
T ss_pred             cccccCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHH
Confidence            3456778999999999999999987754332110 0     000                                    


Q ss_pred             ------------cceeEEEEEEEECCeEE-EEEEEeCCCc-------------chhhhhHHHhhcCCCEEEEEEECCChh
Q 040481           49 ------------IGVEFQTQSMEIDGKEV-KAQIWDTAGQ-------------ERFRAVTSAYYRGAVGALIVYDITRRT  102 (222)
Q Consensus        49 ------------~~~~~~~~~~~~~~~~~-~~~i~D~~G~-------------~~~~~~~~~~~~~~d~vi~v~d~~~~~  102 (222)
                                  .++.-.+....+.|.++ .+.++|.||.             +....+..++..+.+++|+|+--..-.
T Consensus       383 ~E~RMr~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVD  462 (980)
T KOG0447|consen  383 IELRMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVD  462 (980)
T ss_pred             HHHHHHhcccCCcccccceEEEeecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcc
Confidence                        01122222333333332 3568899992             234567788999999999998643221


Q ss_pred             hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH
Q 040481          103 TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA  150 (222)
Q Consensus       103 s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~  150 (222)
                      .-.  ...-..+.+..+.+...|+|.+|.|+.+..-..+..++.....
T Consensus       463 AER--SnVTDLVsq~DP~GrRTIfVLTKVDlAEknlA~PdRI~kIleG  508 (980)
T KOG0447|consen  463 AER--SIVTDLVSQMDPHGRRTIFVLTKVDLAEKNVASPSRIQQIIEG  508 (980)
T ss_pred             hhh--hhHHHHHHhcCCCCCeeEEEEeecchhhhccCCHHHHHHHHhc
Confidence            100  1122334455567788899999999988767777777766554

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.30  E-value=5e-06  Score=64.58  Aligned_cols=89  Identities=21%  Similarity=0.190  Sum_probs=59.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-------hhhHHHhhcCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-------RAVTSAYYRGA   89 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~~   89 (222)
                      -+|.++|.|.+|||||+..|.+..........++.......+.+.+.  ++++.|.||.-+-       .....+..+.|
T Consensus        60 a~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl~~vpG~~~y~ga--Kiqlldlpgiiegakdgkgrg~qviavartc  137 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGVIRYKGA--KIQLLDLPGIIEGAKDGKGRGKQVIAVARTC  137 (358)
T ss_pred             eeeeEEecCccchhhhhhhhcCCCCccccccceeEEEecceEecccc--ceeeecCcchhcccccCCCCccEEEEEeecc
Confidence            48999999999999999999876654333333333333344445554  4669999994321       12233456778


Q ss_pred             CEEEEEEECCChhhHHHH
Q 040481           90 VGALIVYDITRRTTFDSI  107 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~  107 (222)
                      +.+++|.|+..+-+...+
T Consensus       138 nli~~vld~~kp~~hk~~  155 (358)
T KOG1487|consen  138 NLIFIVLDVLKPLSHKKI  155 (358)
T ss_pred             cEEEEEeeccCcccHHHH
Confidence            999999999887665444

>PRK12288 GTPase RsgA; Reviewed

Probab=98.28  E-value=1.7e-06  Score=71.43  Aligned_cols=58  Identities=17%  Similarity=0.216  Sum_probs=36.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcCCCC-CCC-----ccceeEEEEEEEECCeEEEEEEEeCCCcchhh
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEFNPH-SKA-----TIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~~~~-~~~-----~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   79 (222)
                      ++++|.+|||||||||+|++...... ..+     ...++.....+.+.+..   .++||||...+.
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~---~liDTPGir~~~  271 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG---DLIDSPGVREFG  271 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC---EEEECCCCCccc
Confidence            78999999999999999997643211 111     11122233333343322   399999987764

>PRK01889 GTPase RsgA; Reviewed

Probab=98.26  E-value=5.5e-06  Score=68.84  Aligned_cols=84  Identities=19%  Similarity=0.173  Sum_probs=60.6

Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEEccCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE-AEGLFFMETSALDS  163 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~  163 (222)
                      ...++|.+++|+++........+..++..+...   +++.+||+||+||.+..   .+....+.. ..+.+++.+|++++
T Consensus       109 iaANvD~vliV~s~~p~~~~~~ldr~L~~a~~~---~i~piIVLNK~DL~~~~---~~~~~~~~~~~~g~~Vi~vSa~~g  182 (356)
T PRK01889        109 IAANVDTVFIVCSLNHDFNLRRIERYLALAWES---GAEPVIVLTKADLCEDA---EEKIAEVEALAPGVPVLAVSALDG  182 (356)
T ss_pred             EEEeCCEEEEEEecCCCCChhHHHHHHHHHHHc---CCCEEEEEEChhcCCCH---HHHHHHHHHhCCCCcEEEEECCCC
Confidence            357899999999997655555667777766653   46779999999997531   111222222 45788999999999


Q ss_pred             CCHHHHHHHHH
Q 040481          164 TNVKSAFEIVI  174 (222)
Q Consensus       164 ~~i~~~~~~i~  174 (222)
                      .|++++..++.
T Consensus       183 ~gl~~L~~~L~  193 (356)
T PRK01889        183 EGLDVLAAWLS  193 (356)
T ss_pred             ccHHHHHHHhh
Confidence            99999887764

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.24  E-value=5.2e-06  Score=67.02  Aligned_cols=101  Identities=17%  Similarity=0.149  Sum_probs=65.7

Q ss_pred             CCCcch-hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH
Q 040481           72 TAGQER-FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA  150 (222)
Q Consensus        72 ~~G~~~-~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~  150 (222)
                      .|||.. -.......+..+|++|+|+|+.++.+...  .++..+..    +.|+++|+||+|+.+...  .+...++...
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~~----~kp~iiVlNK~DL~~~~~--~~~~~~~~~~   78 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSEN--PMIDKIIG----NKPRLLILNKSDLADPEV--TKKWIEYFEE   78 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHhC----CCCEEEEEEchhcCCHHH--HHHHHHHHHH
Confidence            467643 23445667899999999999987754221  12222211    468999999999864211  1111222234


Q ss_pred             cCCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          151 EGLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       151 ~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      .+.+++.+||+++.|+.++++.+...+.+.
T Consensus        79 ~~~~vi~vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         79 QGIKALAINAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            467789999999999999988877765443

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.22  E-value=1.9e-05  Score=66.70  Aligned_cols=114  Identities=15%  Similarity=0.104  Sum_probs=62.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc------CcC----CCCCC-----------CccceeEEEEEEEEC-------------
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR------NEF----NPHSK-----------ATIGVEFQTQSMEID-------------   61 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~------~~~----~~~~~-----------~~~~~~~~~~~~~~~-------------   61 (222)
                      .-.|+++|++||||||++..|..      ...    ...+.           ...+.++.......+             
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~  179 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK  179 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH
Confidence            35789999999999999998852      111    01111           001222221110001             


Q ss_pred             CeEEEEEEEeCCCcchhhhhHH----Hh--hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           62 GKEVKAQIWDTAGQERFRAVTS----AY--YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~----~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      ...+.+.|+||+|....+....    .+  ....+.+++|+|+.-++.-....   ..+....   -+.-+|+||.|...
T Consensus       180 ~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a---~~F~~~~---~~~g~IlTKlD~~a  253 (429)
T TIGR01425       180 KENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQA---KAFKDSV---DVGSVIITKLDGHA  253 (429)
T ss_pred             hCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHH---HHHHhcc---CCcEEEEECccCCC
Confidence            0246788999999544322211    11  23467899999998765422222   2222211   24578999999753

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.21  E-value=2.5e-06  Score=68.06  Aligned_cols=59  Identities=22%  Similarity=0.246  Sum_probs=37.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC------CCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF------NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   79 (222)
                      ..+++|++|||||||+|+|.+...      .........++....-+.+++.+   .++||||...+.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCccC
Confidence            568999999999999999977422      12221222233344445554333   389999977654

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=98.20  E-value=1.2e-05  Score=62.50  Aligned_cols=69  Identities=17%  Similarity=0.216  Sum_probs=49.3

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChh-------hHHHH---HHHHHHHHhcCC-CCCcEEEEEeCCCC
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRT-------TFDSI---SRWLDELKTHSD-TTVARMLVGNKCDL  133 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~-------s~~~~---~~~~~~i~~~~~-~~~p~iiv~nK~Dl  133 (222)
                      +.|+.+|++|+.....-|...+..+.++|||+..+...       +-..+   ..++..+.+... ..+.+|+..||.|+
T Consensus       202 v~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqDl  281 (379)
T KOG0099|consen  202 VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQDL  281 (379)
T ss_pred             cceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHHH
Confidence            56889999999999999999999999999999987521       11222   222233333222 34677888999997

>PRK12289 GTPase RsgA; Reviewed

Probab=98.19  E-value=3e-06  Score=70.03  Aligned_cols=58  Identities=22%  Similarity=0.203  Sum_probs=35.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCC-CCc-----cceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHS-KAT-----IGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~-~~~-----~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      .++|+|++|||||||||+|++....... .+.     ..++.....+...+..   .++||||...+
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~~  237 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQP  237 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCcccc
Confidence            3799999999999999999876432111 111     1122333344443322   49999997554

>PRK13796 GTPase YqeH; Provisional

Probab=98.18  E-value=1.7e-05  Score=66.14  Aligned_cols=92  Identities=23%  Similarity=0.250  Sum_probs=60.3

Q ss_pred             hhhhhHHHhhcCCC-EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH----HHHHHc
Q 040481           77 RFRAVTSAYYRGAV-GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK----SLAEAE  151 (222)
Q Consensus        77 ~~~~~~~~~~~~~d-~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~----~~~~~~  151 (222)
                      .+..... .+...+ .+++|+|+.|..     ..|...+.+... ..|+++|+||+|+.+ .....+.+.    .++...
T Consensus        58 ~~~~~l~-~i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~-~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~~  129 (365)
T PRK13796         58 DFLKLLN-GIGDSDALVVNVVDIFDFN-----GSWIPGLHRFVG-NNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKEL  129 (365)
T ss_pred             HHHHHHH-hhcccCcEEEEEEECccCC-----CchhHHHHHHhC-CCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHhc
Confidence            3444333 345555 889999997743     224444444332 468999999999964 233333333    335555


Q ss_pred             CC---eEEEEccCCCCCHHHHHHHHHHH
Q 040481          152 GL---FFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       152 ~~---~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ++   .++.+||+++.|++++++.+.+.
T Consensus       130 g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        130 GLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            65   58999999999999999988654

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.17  E-value=1.1e-05  Score=75.23  Aligned_cols=111  Identities=23%  Similarity=0.260  Sum_probs=65.0

Q ss_pred             EEEcCCCCCHHHHHHHHhcCcCCCCC---CCc-ccee-EEEEEEEECCeEEEEEEEeCCCc--------chhhhhHHHh-
Q 040481           20 VIIGDSAVGKSNLLSRYARNEFNPHS---KAT-IGVE-FQTQSMEIDGKEVKAQIWDTAGQ--------ERFRAVTSAY-   85 (222)
Q Consensus        20 ~i~G~~~~GKStli~~l~~~~~~~~~---~~~-~~~~-~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~-   85 (222)
                      +|+|++|+||||++.. .+..++...   ... .+.. .... ..+.+   ...++||.|.        +.....|..+ 
T Consensus       129 ~viG~pgsGKTtal~~-sgl~Fpl~~~~~~~~~~~~gT~~cd-wwf~d---eaVlIDtaGry~~q~s~~~~~~~~W~~fL  203 (1188)
T COG3523         129 MVIGPPGSGKTTALLN-SGLQFPLAEQMGALGLAGPGTRNCD-WWFTD---EAVLIDTAGRYITQDSADEVDRAEWLGFL  203 (1188)
T ss_pred             EEecCCCCCcchHHhc-ccccCcchhhhccccccCCCCcccC-ccccc---ceEEEcCCcceecccCcchhhHHHHHHHH
Confidence            7899999999999854 233222111   000 0100 1111 11222   2358999982        1223445544 


Q ss_pred             --------hcCCCEEEEEEECCChhhH---------HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           86 --------YRGAVGALIVYDITRRTTF---------DSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        86 --------~~~~d~vi~v~d~~~~~s~---------~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                              .+..|+||+.+|+.+.-+-         ..+..-+.++........||+|++||.|+..
T Consensus       204 ~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         204 GLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             HHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence                    3567999999999764221         1122335666666778899999999999864

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.15  E-value=7.9e-05  Score=62.10  Aligned_cols=143  Identities=18%  Similarity=0.244  Sum_probs=84.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-----------------CC-Cc---cc---eeEEEEEEEE-CCeEEEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-----------------SK-AT---IG---VEFQTQSMEI-DGKEVKAQI   69 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-----------------~~-~~---~~---~~~~~~~~~~-~~~~~~~~i   69 (222)
                      ..+=|.+|||-.+||||||+++......+.                 .. .+   +.   +.-.-..+.+ ++..+.+.+
T Consensus        16 GdIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRL   95 (492)
T PF09547_consen   16 GDIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRL   95 (492)
T ss_pred             CceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEE
Confidence            356789999999999999999955322111                 00 00   00   1111123333 567888999


Q ss_pred             EeCCCc-------------------chhhhhH----------HHhh--cCCCEEEEEEECCC----hhhHHHH-HHHHHH
Q 040481           70 WDTAGQ-------------------ERFRAVT----------SAYY--RGAVGALIVYDITR----RTTFDSI-SRWLDE  113 (222)
Q Consensus        70 ~D~~G~-------------------~~~~~~~----------~~~~--~~~d~vi~v~d~~~----~~s~~~~-~~~~~~  113 (222)
                      +||.|-                   +.|+.-.          +..+  ++.-++++.-|-+-    ++.+..+ .+...+
T Consensus        96 iDCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~E  175 (492)
T PF09547_consen   96 IDCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEE  175 (492)
T ss_pred             EeecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHH
Confidence            999991                   0111000          0011  33446777666642    4455554 334555


Q ss_pred             HHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCC
Q 040481          114 LKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALD  162 (222)
Q Consensus       114 i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  162 (222)
                      +..   -+.|++|++|-.+-.  ..-..+.+.++..+++++++++++.+
T Consensus       176 Lk~---igKPFvillNs~~P~--s~et~~L~~eL~ekY~vpVlpvnc~~  219 (492)
T PF09547_consen  176 LKE---IGKPFVILLNSTKPY--SEETQELAEELEEKYDVPVLPVNCEQ  219 (492)
T ss_pred             HHH---hCCCEEEEEeCCCCC--CHHHHHHHHHHHHHhCCcEEEeehHH
Confidence            555   457999999987643  33445567778888999988887664

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.14  E-value=5.5e-06  Score=65.33  Aligned_cols=57  Identities=25%  Similarity=0.257  Sum_probs=35.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCC------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPH------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      .++++|++|||||||+|+|.+......      ......++.....+.+.+ .   .++||||...+
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~-~---~liDtPG~~~~  184 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHG-G---LIADTPGFNEF  184 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCC-c---EEEeCCCcccc
Confidence            679999999999999999987643211      111111222223333333 2   59999997554

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.11  E-value=2e-05  Score=64.44  Aligned_cols=149  Identities=15%  Similarity=0.178  Sum_probs=83.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCC------------------CCcccee-----EEEEEEEE------------
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHS------------------KATIGVE-----FQTQSMEI------------   60 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~------------------~~~~~~~-----~~~~~~~~------------   60 (222)
                      +++|+++|+..+|||||+-.|+.+.+....                  ..+.+-+     .....++.            
T Consensus       133 E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdWvk  212 (641)
T KOG0463|consen  133 EARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDWVK  212 (641)
T ss_pred             eEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCccccee
Confidence            479999999999999999777665432211                  1111111     11111111            


Q ss_pred             --CCeEEEEEEEeCCCcchhhhhHH--HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481           61 --DGKEVKAQIWDTAGQERFRAVTS--AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus        61 --~~~~~~~~i~D~~G~~~~~~~~~--~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                        .+..-.+.|+|.+|++.|...+.  ..-+..|...+++-++-+-- .-..+.+...   ....+|+++|.+|+|+-..
T Consensus       213 Ice~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIi-GmTKEHLgLA---LaL~VPVfvVVTKIDMCPA  288 (641)
T KOG0463|consen  213 ICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGII-GMTKEHLGLA---LALHVPVFVVVTKIDMCPA  288 (641)
T ss_pred             eccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccce-eccHHhhhhh---hhhcCcEEEEEEeeccCcH
Confidence              11122367999999999865432  23355677777777765421 0001112211   1245799999999997431


Q ss_pred             CCCCHHHH-----------------------------HHHHHHcCCeEEEEccCCCCCHHHH
Q 040481          137 RNVSTEEG-----------------------------KSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus       137 ~~~~~~~~-----------------------------~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                       .+..+..                             ..|..+.-|++|.+|-.+|+|++-+
T Consensus       289 -NiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LL  349 (641)
T KOG0463|consen  289 -NILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLL  349 (641)
T ss_pred             -HHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHH
Confidence             1111111                             1222233467899999999998653

>PRK13796 GTPase YqeH; Provisional

Probab=98.09  E-value=5.9e-06  Score=68.89  Aligned_cols=57  Identities=21%  Similarity=0.369  Sum_probs=37.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC----CCCCccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP----HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      .++.++|.+|||||||+|+|++.....    ...+..|++.....+.+++.   ..++||||..
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            379999999999999999998643111    01122344445555555432   3599999963

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.09  E-value=8.8e-06  Score=67.76  Aligned_cols=58  Identities=19%  Similarity=0.372  Sum_probs=38.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC----CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP----HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      .+|+++|.+|||||||+|+|++.....    ......+++.....+..++.   +.++||||...
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~~  216 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGIIN  216 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCCC
Confidence            489999999999999999998753211    11122344444555554321   45999999643

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.05  E-value=6.6e-05  Score=62.44  Aligned_cols=146  Identities=16%  Similarity=0.099  Sum_probs=74.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC---CCCCCcc--------------------ceeEEEEEEE-------ECCeEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN---PHSKATI--------------------GVEFQTQSME-------IDGKEVK   66 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~---~~~~~~~--------------------~~~~~~~~~~-------~~~~~~~   66 (222)
                      -.++++|++|+||||++..|......   .......                    +..+....-.       ..-....
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~D  217 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKH  217 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCC
Confidence            37889999999999999999654211   0000000                    1111111000       0012346


Q ss_pred             EEEEeCCCcchhhhhHH---Hhh---cCCCEEEEEEECCCh-hhHHHHHHHHHHHHhcCCCC--CcEEEEEeCCCCCcCC
Q 040481           67 AQIWDTAGQERFRAVTS---AYY---RGAVGALIVYDITRR-TTFDSISRWLDELKTHSDTT--VARMLVGNKCDLESIR  137 (222)
Q Consensus        67 ~~i~D~~G~~~~~~~~~---~~~---~~~d~vi~v~d~~~~-~s~~~~~~~~~~i~~~~~~~--~p~iiv~nK~Dl~~~~  137 (222)
                      +.++||+|....+....   ..+   ...+-.++|++++.. ..+..+..-+..........  -+-=+|+||.|.... 
T Consensus       218 lVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~~-  296 (374)
T PRK14722        218 MVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEASN-  296 (374)
T ss_pred             EEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccCCC-
Confidence            78999999654332221   122   223456899999765 34444433233222111000  123578899997532 


Q ss_pred             CCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                         .=.+..++...+.|+..++  +|.+|.+
T Consensus       297 ---~G~~l~~~~~~~lPi~yvt--~Gq~VPe  322 (374)
T PRK14722        297 ---LGGVLDTVIRYKLPVHYVS--TGQKVPE  322 (374)
T ss_pred             ---ccHHHHHHHHHCcCeEEEe--cCCCCCc
Confidence               2234556667777755443  3344443

>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=98.00  E-value=7.9e-05  Score=55.48  Aligned_cols=83  Identities=14%  Similarity=0.055  Sum_probs=45.9

Q ss_pred             EEEEEEEeCCCcchhh----hhHHHhh--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           64 EVKAQIWDTAGQERFR----AVTSAYY--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~----~~~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      .+.+.++|++|.....    .....+.  ...+.+++|+|+.....   ...+...+.....   ..-+|.||.|.... 
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~~---~~~viltk~D~~~~-  154 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEALG---ITGVILTKLDGDAR-  154 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhCC---CCEEEEECCcCCCC-
Confidence            3456789999974322    1111222  24899999999965532   2233333332222   24677899997532 


Q ss_pred             CCCHHHHHHHHHHcCCeEE
Q 040481          138 NVSTEEGKSLAEAEGLFFM  156 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~  156 (222)
                         ...+...+...++|+.
T Consensus       155 ---~g~~~~~~~~~~~p~~  170 (173)
T cd03115         155 ---GGAALSIRAVTGKPIK  170 (173)
T ss_pred             ---cchhhhhHHHHCcCeE
Confidence               1222336666666654

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.00  E-value=7.6e-05  Score=59.74  Aligned_cols=91  Identities=18%  Similarity=0.138  Sum_probs=67.6

Q ss_pred             HHhhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccC
Q 040481           83 SAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSAL  161 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  161 (222)
                      +.-..+.|-+++|+++.++. +...+.+++-..+.   .++..+||+||+||.++.....++........+.+++.+|++
T Consensus        74 Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s~~  150 (301)
T COG1162          74 RPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVSAK  150 (301)
T ss_pred             CCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEecCc
Confidence            33445577788888888876 56666777666655   345668899999998654444345666778899999999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIRE  176 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~  176 (222)
                      ++.++.++...+..+
T Consensus       151 ~~~~~~~l~~~l~~~  165 (301)
T COG1162         151 NGDGLEELAELLAGK  165 (301)
T ss_pred             CcccHHHHHHHhcCC
Confidence            999999987766544

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.97  E-value=1.6e-05  Score=64.13  Aligned_cols=60  Identities=22%  Similarity=0.246  Sum_probs=37.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCC-C-----CccceeEEEEEEEECCeEEEEEEEeCCCcchhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHS-K-----ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~-~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   79 (222)
                      -.++++|++|+|||||+|.|++....... .     ....++.....+...+..   .++|+||...+.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~~---~liDtPG~~~~~  227 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGGG---LLIDTPGFREFG  227 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCCC---EEEECCCCCccC
Confidence            47899999999999999999886532211 1     111122333344443222   489999986653

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK00098 GTPase RsgA; Reviewed

Probab=97.97  E-value=1.8e-05  Score=64.27  Aligned_cols=57  Identities=25%  Similarity=0.292  Sum_probs=34.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCC-Cc-----cceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSK-AT-----IGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~-----~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      .++++|++|+|||||+|+|++........ +.     ..++.....+.+++.   ..++|+||...
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~  228 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSS  228 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCc
Confidence            68999999999999999998765322111 10     011222233333332   25899999754

>PRK13695 putative NTPase; Provisional

Probab=97.96  E-value=0.0002  Score=53.44  Aligned_cols=77  Identities=10%  Similarity=0.056  Sum_probs=43.8

Q ss_pred             hhcCCCEEEEEEEC---CChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccC
Q 040481           85 YYRGAVGALIVYDI---TRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSAL  161 (222)
Q Consensus        85 ~~~~~d~vi~v~d~---~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  161 (222)
                      .+..++.  +++|-   .+..+    ..+...+......+.|++++.+|....       .....+....+..++++   
T Consensus        93 ~l~~~~~--lllDE~~~~e~~~----~~~~~~l~~~~~~~~~~i~v~h~~~~~-------~~~~~i~~~~~~~i~~~---  156 (174)
T PRK13695         93 ALEEADV--IIIDEIGKMELKS----PKFVKAVEEVLDSEKPVIATLHRRSVH-------PFVQEIKSRPGGRVYEL---  156 (174)
T ss_pred             ccCCCCE--EEEECCCcchhhh----HHHHHHHHHHHhCCCeEEEEECchhhH-------HHHHHHhccCCcEEEEE---
Confidence            3445665  67774   22222    334444444444567988888885321       22334555566777777   


Q ss_pred             CCCCHHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIREI  177 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~  177 (222)
                      +.+|-+++++.+.+.+
T Consensus       157 ~~~~r~~~~~~~~~~~  172 (174)
T PRK13695        157 TPENRDSLPFEILNRL  172 (174)
T ss_pred             cchhhhhHHHHHHHHH
Confidence            5556667777666643

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.96  E-value=0.00052  Score=51.30  Aligned_cols=85  Identities=24%  Similarity=0.226  Sum_probs=58.9

Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTE  142 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~  142 (222)
                      ..+.+.++|+|+....  .....+..+|.+++++..+.. ++..+..++..+...   +.|+.+|+|+.|...   -..+
T Consensus        91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~~~-~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~---~~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPTPS-GLHDLERAVELVRHF---GIPVGVVINKYDLND---EIAE  161 (179)
T ss_pred             cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCCcc-cHHHHHHHHHHHHHc---CCCEEEEEeCCCCCc---chHH
Confidence            3567889999975322  334567889999999998743 556666666666543   357889999998643   2344


Q ss_pred             HHHHHHHHcCCeEE
Q 040481          143 EGKSLAEAEGLFFM  156 (222)
Q Consensus       143 ~~~~~~~~~~~~~~  156 (222)
                      +.+++....+++++
T Consensus       162 ~~~~~~~~~~~~vl  175 (179)
T cd03110         162 EIEDYCEEEGIPIL  175 (179)
T ss_pred             HHHHHHHHcCCCeE
Confidence            56777777887765

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

>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=97.94  E-value=6.6e-05  Score=55.70  Aligned_cols=135  Identities=19%  Similarity=0.234  Sum_probs=65.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeC-CCc---------------------
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDT-AGQ---------------------   75 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~-~G~---------------------   75 (222)
                      +|+|-|++|+|||||+++++..-.... .+..  .+....+.-++...-+.+.|. .|.                     
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~~-~~v~--Gf~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~   77 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKKG-LPVG--GFYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHTC-GGEE--EEEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhccC-Cccc--eEEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            689999999999999999875431110 0111  122222223444444455555 221                     


Q ss_pred             -chhhh----hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC-CCCcCCCCCHHHHHHHHH
Q 040481           76 -ERFRA----VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC-DLESIRNVSTEEGKSLAE  149 (222)
Q Consensus        76 -~~~~~----~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~-Dl~~~~~~~~~~~~~~~~  149 (222)
                       +.+..    .....+..+|  ++|+|---+..+.. ..|.+.+........|++.++.+. +.+        ....+..
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl~~-~~F~~~v~~~l~s~~~vi~vv~~~~~~~--------~l~~i~~  146 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKMELKS-PGFREAVEKLLDSNKPVIGVVHKRSDNP--------FLEEIKR  146 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTCCC--CHHHHHHHHHHCTTSEEEEE--SS--SC--------CHHHHHT
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhhhcC-HHHHHHHHHHHcCCCcEEEEEecCCCcH--------HHHHHHh
Confidence             11111    1111223444  77788654422111 345555555555667877777776 321        2344666


Q ss_pred             HcCCeEEEEccCCCCCH
Q 040481          150 AEGLFFMETSALDSTNV  166 (222)
Q Consensus       150 ~~~~~~~~~sa~~~~~i  166 (222)
                      ..++.+++++..+...+
T Consensus       147 ~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  147 RPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             TTTSEEEE--TTTCCCH
T ss_pred             CCCcEEEEeChhHHhhH
Confidence            67788999876665544

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.

>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=97.87  E-value=0.00017  Score=54.88  Aligned_cols=138  Identities=20%  Similarity=0.156  Sum_probs=73.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCC----------CC-----------CccceeEEEEEEEE-------------CCe
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPH----------SK-----------ATIGVEFQTQSMEI-------------DGK   63 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~----------~~-----------~~~~~~~~~~~~~~-------------~~~   63 (222)
                      -|+++|+.||||||.+-+|........          +.           ...+.++.......             ...
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~   82 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRKK   82 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhc
Confidence            579999999999999988854321111          00           00122222211000             011


Q ss_pred             EEEEEEEeCCCcchhhhh----HHHhh--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           64 EVKAQIWDTAGQERFRAV----TSAYY--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~----~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      .+.+.++||+|....+..    ...++  ...+-+++|.+++..+.  .+......... ..   +-=+|+||.|...  
T Consensus        83 ~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~--~~~~~~~~~~~-~~---~~~lIlTKlDet~--  154 (196)
T PF00448_consen   83 GYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQE--DLEQALAFYEA-FG---IDGLILTKLDETA--  154 (196)
T ss_dssp             TSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGH--HHHHHHHHHHH-SS---TCEEEEESTTSSS--
T ss_pred             CCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChH--HHHHHHHHhhc-cc---CceEEEEeecCCC--
Confidence            245789999995443221    11111  25678999999987753  22222222221 11   2257899999753  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481          138 NVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                        ..-.+..++...+.|+-.++  +|.+|+
T Consensus       155 --~~G~~l~~~~~~~~Pi~~it--~Gq~V~  180 (196)
T PF00448_consen  155 --RLGALLSLAYESGLPISYIT--TGQRVD  180 (196)
T ss_dssp             --TTHHHHHHHHHHTSEEEEEE--SSSSTT
T ss_pred             --CcccceeHHHHhCCCeEEEE--CCCChh
Confidence              22345667778888866554  344443

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 ....

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

Probab=97.87  E-value=7.4e-05  Score=54.26  Aligned_cols=58  Identities=19%  Similarity=0.155  Sum_probs=36.4

Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      .+.+.++|++|....   ...++..+|-+|++...+-.+.+.-+.  ...+..      .=++++||.|
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~~k--~~~~~~------~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQAIK--AGIMEI------ADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHHhh--hhHhhh------cCEEEEeCCC
Confidence            456789999885432   234788899999999887443322211  122222      2288999987

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.

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.87  E-value=2.2e-05  Score=66.36  Aligned_cols=59  Identities=17%  Similarity=0.158  Sum_probs=43.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      .+.|.+||-|+|||||+||+|.+.+.... ..|+|-+...+++.++.   .+-+.||||.-..
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVsV-S~TPGkTKHFQTi~ls~---~v~LCDCPGLVfP  372 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVSV-SSTPGKTKHFQTIFLSP---SVCLCDCPGLVFP  372 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceeee-ecCCCCcceeEEEEcCC---CceecCCCCcccc
Confidence            68999999999999999999999875433 23335555566665543   2559999996543

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.86  E-value=0.00029  Score=60.87  Aligned_cols=138  Identities=16%  Similarity=0.205  Sum_probs=71.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC---------CCCC-cc-----------ceeEEEEEEEE---------CCeEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP---------HSKA-TI-----------GVEFQTQSMEI---------DGKEVK   66 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~---------~~~~-~~-----------~~~~~~~~~~~---------~~~~~~   66 (222)
                      -.|+|+|+.|+||||++..|...-...         ..++ ..           ...+......-         ....+.
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~D  430 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDYK  430 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccCC
Confidence            478899999999999998886421100         0000 00           00011111100         012466


Q ss_pred             EEEEeCCCcchhhhhHHH---hhc--CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH
Q 040481           67 AQIWDTAGQERFRAVTSA---YYR--GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST  141 (222)
Q Consensus        67 ~~i~D~~G~~~~~~~~~~---~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~  141 (222)
                      +.|+||+|....+.....   .+.  .....++|++....  ...+...+..+...    .+.-+|+||.|...    ..
T Consensus       431 LVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss--~~Dl~eii~~f~~~----~~~gvILTKlDEt~----~l  500 (559)
T PRK12727        431 LVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAH--FSDLDEVVRRFAHA----KPQGVVLTKLDETG----RF  500 (559)
T ss_pred             EEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCC--hhHHHHHHHHHHhh----CCeEEEEecCcCcc----ch
Confidence            889999996443222111   111  12356778887653  33333333333222    25579999999743    22


Q ss_pred             HHHHHHHHHcCCeEEEEccCCCCCH
Q 040481          142 EEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus       142 ~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      -.+.......+.++..++  +|..|
T Consensus       501 G~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        501 GSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             hHHHHHHHHhCCCEEEEe--CCCCc
Confidence            345566777777765554  34455

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=97.85  E-value=0.001  Score=48.85  Aligned_cols=145  Identities=12%  Similarity=0.049  Sum_probs=99.2

Q ss_pred             CCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcC
Q 040481            9 GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG   88 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   88 (222)
                      ++-|......|+++|..+.++..|..++.....          ++..+......         .|=..+...    .-..
T Consensus         8 ~klp~ln~atiLLVg~e~~~~~~LA~a~l~~~~----------~~~l~Vh~a~s---------LPLp~e~~~----lRpr   64 (176)
T PF11111_consen    8 DKLPELNTATILLVGTEEALLQQLAEAMLEEDK----------EFKLKVHLAKS---------LPLPSENNN----LRPR   64 (176)
T ss_pred             ccCCCcceeEEEEecccHHHHHHHHHHHHhhcc----------ceeEEEEEecc---------CCCcccccC----CCce
Confidence            455666788999999999999999999985221          01111111110         111111111    2355


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      .|.|+|++|.....++..++.-+..+...--.+ .+.++++-....+...+...++.+++..++++++.+.-.+..+...
T Consensus        65 IDlIVFvinl~sk~SL~~ve~SL~~vd~~fflG-KVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~  143 (176)
T PF11111_consen   65 IDLIVFVINLHSKYSLQSVEASLSHVDPSFFLG-KVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTS  143 (176)
T ss_pred             eEEEEEEEecCCcccHHHHHHHHhhCChhhhcc-ceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHHH
Confidence            799999999999999998887666654433333 4567777777777778899999999999999999888877777666


Q ss_pred             HHHHHHHHH
Q 040481          169 AFEIVIREI  177 (222)
Q Consensus       169 ~~~~i~~~~  177 (222)
                      +-+.+++.+
T Consensus       144 lAqRLL~~l  152 (176)
T PF11111_consen  144 LAQRLLRML  152 (176)
T ss_pred             HHHHHHHHH
Confidence            655555543

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>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=97.84  E-value=6e-05  Score=56.49  Aligned_cols=80  Identities=18%  Similarity=0.112  Sum_probs=43.1

Q ss_pred             EEEEEEeCCCcchhhhh-----HHHhhcCCCEEEEEEECCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           65 VKAQIWDTAGQERFRAV-----TSAYYRGAVGALIVYDITRRTTFDSISR-WLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~-----~~~~~~~~d~vi~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                      ....++++.|.......     .....-..+.+|.|+|+........+.. +...+....      +||+||.|+.+.. 
T Consensus        85 ~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~AD------vIvlnK~D~~~~~-  157 (178)
T PF02492_consen   85 PDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAFAD------VIVLNKIDLVSDE-  157 (178)
T ss_dssp             -SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT-S------EEEEE-GGGHHHH-
T ss_pred             cCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchhcC------EEEEeccccCChh-
Confidence            45567888885554433     1111344688999999976543333322 333332222      8999999997644 


Q ss_pred             CCHHHHHHHHHHc
Q 040481          139 VSTEEGKSLAEAE  151 (222)
Q Consensus       139 ~~~~~~~~~~~~~  151 (222)
                      ...+..++..+..
T Consensus       158 ~~i~~~~~~ir~l  170 (178)
T PF02492_consen  158 QKIERVREMIREL  170 (178)
T ss_dssp             --HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH
Confidence            2224444454444

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.

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.84  E-value=0.00011  Score=56.96  Aligned_cols=114  Identities=21%  Similarity=0.314  Sum_probs=68.5

Q ss_pred             EEEEEEcCCCC--CHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEE--EEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           17 FKIVIIGDSAV--GKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKA--QIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        17 ~~i~i~G~~~~--GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      +-++++|-+|+  ||.+|+.+|....+.........+++..  +.++++.+..  .+.-.+--+++.-..........++
T Consensus         5 p~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hg--wtid~kyysadi~lcishicde~~lpn~~~a~pl~a~   82 (418)
T KOG4273|consen    5 PCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHG--WTIDNKYYSADINLCISHICDEKFLPNAEIAEPLQAF   82 (418)
T ss_pred             ceEEEecccccccchHHHHHHhcchhheeeccccCceeeec--eEecceeeecceeEEeecccchhccCCcccccceeeE
Confidence            45789999999  9999999998877755544333333333  2334443322  1211111112211112223455789


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcE-EEEEeCCCCCc
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVAR-MLVGNKCDLES  135 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-iiv~nK~Dl~~  135 (222)
                      +.|||.+....+..+..|+.....   ....+ +.++||.|-+.
T Consensus        83 vmvfdlse~s~l~alqdwl~htdi---nsfdillcignkvdrvp  123 (418)
T KOG4273|consen   83 VMVFDLSEKSGLDALQDWLPHTDI---NSFDILLCIGNKVDRVP  123 (418)
T ss_pred             EEEEeccchhhhHHHHhhcccccc---ccchhheeccccccccc
Confidence            999999999999999999764322   22333 45689999754

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.84  E-value=0.00039  Score=56.84  Aligned_cols=144  Identities=19%  Similarity=0.172  Sum_probs=78.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCC------CCCCcccee--------------EEEEEEEEC---------------C
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNP------HSKATIGVE--------------FQTQSMEID---------------G   62 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~------~~~~~~~~~--------------~~~~~~~~~---------------~   62 (222)
                      -.+|-|.-|+|||||++.++......      +.-...+++              ....-+-|.               .
T Consensus         3 VtvitGFLGsGKTTlL~~lL~~~~g~kiAVIVNEfGEvgID~~~~l~~~~e~~~El~nGCICCT~r~dl~~~~~~L~~~~   82 (323)
T COG0523           3 VTVITGFLGSGKTTLLNHLLANRDGKKIAVIVNEFGEVGIDGGALLSDTGEEVVELTNGCICCTVRDDLLPALERLLRRR   82 (323)
T ss_pred             EEEEeecCCCCHHHHHHHHHhccCCCcEEEEEecCccccccCCCccccCCccEEEeCCceEEEeccchhHHHHHHHHhcc
Confidence            35778999999999999997754310      000001111              111111111               1


Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhc--------CCCEEEEEEECCChhhHHH-HHH-HHHHHHhcCCCCCcEEEEEeCCC
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYR--------GAVGALIVYDITRRTTFDS-ISR-WLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~--------~~d~vi~v~d~~~~~s~~~-~~~-~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      ......++++.|..........+..        ..|++|-|+|+..-..... ... ....+..      .=+||+||.|
T Consensus        83 ~~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~------AD~ivlNK~D  156 (323)
T COG0523          83 DRPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAF------ADVIVLNKTD  156 (323)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHh------CcEEEEeccc
Confidence            1234568899997666444444333        3478999999977543222 222 2222222      2289999999


Q ss_pred             CCcCCCCCHHHHHHHHHHcC--CeEEEEccCCCCCHHHHH
Q 040481          133 LESIRNVSTEEGKSLAEAEG--LFFMETSALDSTNVKSAF  170 (222)
Q Consensus       133 l~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~  170 (222)
                      +.+...  .+..+......+  +++++++.. +....+++
T Consensus       157 lv~~~~--l~~l~~~l~~lnp~A~i~~~~~~-~~~~~~ll  193 (323)
T COG0523         157 LVDAEE--LEALEARLRKLNPRARIIETSYG-DVDLAELL  193 (323)
T ss_pred             CCCHHH--HHHHHHHHHHhCCCCeEEEcccc-CCCHHHhh
Confidence            987553  444455555554  668877763 33344443

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.82  E-value=0.00014  Score=61.39  Aligned_cols=138  Identities=14%  Similarity=0.131  Sum_probs=72.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC---CCC---------CC-----------ccceeEEEEEEE-------ECCeEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN---PHS---------KA-----------TIGVEFQTQSME-------IDGKEVK   66 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~---~~~---------~~-----------~~~~~~~~~~~~-------~~~~~~~   66 (222)
                      -.|+++|+.|+||||++..|.+....   ...         ..           ..+..+....-.       ..-....
T Consensus       192 ~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~~d  271 (420)
T PRK14721        192 GVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRGKH  271 (420)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcCCC
Confidence            48999999999999999988653110   000         00           001111100000       0012235


Q ss_pred             EEEEeCCCcchhhh----hHHHhh--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC
Q 040481           67 AQIWDTAGQERFRA----VTSAYY--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS  140 (222)
Q Consensus        67 ~~i~D~~G~~~~~~----~~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~  140 (222)
                      +.++||+|......    ....+.  ....-.++|+|++...  ..+.+++.....   .+ .-=+|+||.|....    
T Consensus       272 ~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~--~~~~~~~~~f~~---~~-~~~~I~TKlDEt~~----  341 (420)
T PRK14721        272 MVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSG--DTLDEVISAYQG---HG-IHGCIITKVDEAAS----  341 (420)
T ss_pred             EEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCH--HHHHHHHHHhcC---CC-CCEEEEEeeeCCCC----
Confidence            67999999544222    222222  1234678999998542  222333332222   11 23588999997532    


Q ss_pred             HHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481          141 TEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      .-.+..++...+.++..++  +|.+|
T Consensus       342 ~G~~l~~~~~~~lPi~yvt--~Gq~V  365 (420)
T PRK14721        342 LGIALDAVIRRKLVLHYVT--NGQKV  365 (420)
T ss_pred             ccHHHHHHHHhCCCEEEEE--CCCCc
Confidence            2234556777777765544  45566

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.79  E-value=0.0012  Score=55.11  Aligned_cols=155  Identities=17%  Similarity=0.241  Sum_probs=80.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcC--CCCC-CCcc--------------------ceeEEEEEEEE-------CCeEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEF--NPHS-KATI--------------------GVEFQTQSMEI-------DGKEV   65 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~--~~~~-~~~~--------------------~~~~~~~~~~~-------~~~~~   65 (222)
                      .-.|++|||.||||||-+-.|.....  .... ...+                    +.++....-.-       .-..+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            44689999999999999988866543  1111 0111                    11111110000       01345


Q ss_pred             EEEEEeCCCcchhhhh----HHHhhcCC--CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC
Q 040481           66 KAQIWDTAGQERFRAV----TSAYYRGA--VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV  139 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~----~~~~~~~~--d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~  139 (222)
                      .+.++||.|...++..    ...++..+  .-+.+|++++..  ...+.+.+..+...   ++ -=+|+||.|...    
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~~---~i-~~~I~TKlDET~----  352 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSLF---PI-DGLIFTKLDETT----  352 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhccC---Cc-ceeEEEcccccC----
Confidence            6889999997665443    33333333  346788888776  33444444433222   11 147899999653    


Q ss_pred             CHHHHHHHHHHcCCe--EEEEccCCCCCHHHH-HHHHHHHHHHH
Q 040481          140 STEEGKSLAEAEGLF--FMETSALDSTNVKSA-FEIVIREIYSN  180 (222)
Q Consensus       140 ~~~~~~~~~~~~~~~--~~~~sa~~~~~i~~~-~~~i~~~~~~~  180 (222)
                      ..-..-..+...+.|  |+..-..-.++|... -+++++.+..-
T Consensus       353 s~G~~~s~~~e~~~PV~YvT~GQ~VPeDI~va~~~~Lv~~~~g~  396 (407)
T COG1419         353 SLGNLFSLMYETRLPVSYVTNGQRVPEDIVVANPDYLVRRILGT  396 (407)
T ss_pred             chhHHHHHHHHhCCCeEEEeCCCCCCchhhhcChHHHHHHHhcc
Confidence            122233345555555  443333334444332 24556555544

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.79  E-value=0.00035  Score=58.34  Aligned_cols=140  Identities=19%  Similarity=0.193  Sum_probs=74.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC--------CC--CC-----------CccceeEEEEEEE------E---C-CeEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN--------PH--SK-----------ATIGVEFQTQSME------I---D-GKEV   65 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~--------~~--~~-----------~~~~~~~~~~~~~------~---~-~~~~   65 (222)
                      -.|+++|+.|+||||++..|......        ..  +.           ...+.++....-.      +   . ...+
T Consensus       242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~  321 (436)
T PRK11889        242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  321 (436)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCC
Confidence            57899999999999999998542110        00  00           0011111111000      0   0 0135


Q ss_pred             EEEEEeCCCcchhhhh----HHHhh--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC
Q 040481           66 KAQIWDTAGQERFRAV----TSAYY--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV  139 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~----~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~  139 (222)
                      .+.|+||+|.......    ...++  ...+.+++|+|++-..  ..+......+..   .+ .-=+|+||.|....   
T Consensus       322 DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~--~d~~~i~~~F~~---~~-idglI~TKLDET~k---  392 (436)
T PRK11889        322 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKD---IH-IDGIVFTKFDETAS---  392 (436)
T ss_pred             CEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccCh--HHHHHHHHHhcC---CC-CCEEEEEcccCCCC---
Confidence            6789999996442221    22233  2346789999986542  222233333322   11 23688999997642   


Q ss_pred             CHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          140 STEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                       .=.+..++...++|+..++  +|.+|.+
T Consensus       393 -~G~iLni~~~~~lPIsyit--~GQ~VPe  418 (436)
T PRK11889        393 -SGELLKIPAVSSAPIVLMT--DGQDVKK  418 (436)
T ss_pred             -ccHHHHHHHHHCcCEEEEe--CCCCCCc
Confidence             2234556777787755443  3444444

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.79  E-value=6.7e-05  Score=64.74  Aligned_cols=119  Identities=20%  Similarity=0.186  Sum_probs=80.7

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCC-----CCCC-----------CccceeEEEEEEEECCeEEEEEEEeCCCc
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFN-----PHSK-----------ATIGVEFQTQSMEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~-----~~~~-----------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   75 (222)
                      +....-+|.+.-.-.+||||+-.+.+.....     ....           ...++++...-..+....+.++++||||+
T Consensus        35 ~~~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGH  114 (721)
T KOG0465|consen   35 PLNKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGH  114 (721)
T ss_pred             chhhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCc
Confidence            3344568899999999999999887543211     1111           11134444444444555778999999999


Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      -.|-......++-.|+.++|+++..+-.-.....|.+    ....++|.+..+||+|-.
T Consensus       115 vDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ----~~ry~vP~i~FiNKmDRm  169 (721)
T KOG0465|consen  115 VDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQ----MKRYNVPRICFINKMDRM  169 (721)
T ss_pred             eeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHH----HHhcCCCeEEEEehhhhc
Confidence            8887666677888999999999877654333334433    334568999999999964

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.76  E-value=0.00078  Score=55.17  Aligned_cols=95  Identities=8%  Similarity=0.053  Sum_probs=51.7

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhc--------CCCEEEEEEECCChhhHH-HHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYR--------GAVGALIVYDITRRTTFD-SISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~--------~~d~vi~v~d~~~~~s~~-~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      ....++++.|..........++.        ..+++|.|+|+.+..... ........+..      .=+||+||+|+..
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~------AD~IvlnK~Dl~~  164 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGY------ADRILLTKTDVAG  164 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHHh------CCEEEEeccccCC
Confidence            34568899997766555544422        247899999997643211 11111122222      1289999999975


Q ss_pred             CCCCCHHHHHHHHHHc--CCeEEEEccCCCCCHHHHH
Q 040481          136 IRNVSTEEGKSLAEAE--GLFFMETSALDSTNVKSAF  170 (222)
Q Consensus       136 ~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~  170 (222)
                      ..    +.+.......  .++++.+. ........+|
T Consensus       165 ~~----~~~~~~l~~lnp~a~i~~~~-~~~v~~~~l~  196 (318)
T PRK11537        165 EA----EKLRERLARINARAPVYTVV-HGDIDLSLLF  196 (318)
T ss_pred             HH----HHHHHHHHHhCCCCEEEEec-cCCCCHHHHh
Confidence            32    3444455544  35566544 2223444444

>PRK10867 signal recognition particle protein; Provisional

Probab=97.75  E-value=0.00031  Score=59.73  Aligned_cols=86  Identities=15%  Similarity=0.032  Sum_probs=47.2

Q ss_pred             EEEEEEEeCCCcchhhhh----HHHh--hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           64 EVKAQIWDTAGQERFRAV----TSAY--YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~----~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      .+.+.|+||+|....+..    ...+  .-..+.+++|+|+..++.   +......+....  + ..-+|.||.|....-
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~---av~~a~~F~~~~--~-i~giIlTKlD~~~rg  256 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQD---AVNTAKAFNEAL--G-LTGVILTKLDGDARG  256 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHHH---HHHHHHHHHhhC--C-CCEEEEeCccCcccc
Confidence            356789999995432211    1111  124678899999976543   222223332211  1 235778999964321


Q ss_pred             CCCHHHHHHHHHHcCCeEEEEc
Q 040481          138 NVSTEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~s  159 (222)
                      .    .+.......++|+..+.
T Consensus       257 G----~alsi~~~~~~PI~fig  274 (433)
T PRK10867        257 G----AALSIRAVTGKPIKFIG  274 (433)
T ss_pred             c----HHHHHHHHHCcCEEEEe
Confidence            1    25556677777765544

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.75  E-value=0.00023  Score=60.63  Aligned_cols=135  Identities=19%  Similarity=0.115  Sum_probs=70.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCc----C------CCCCCCc-----------cceeEEEEEEEEC-----------C
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNE----F------NPHSKAT-----------IGVEFQTQSMEID-----------G   62 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~----~------~~~~~~~-----------~~~~~~~~~~~~~-----------~   62 (222)
                      ....|+++|++|+||||++..|...-    .      ...+.+.           .+.++.......+           .
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~  173 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF  173 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence            35678999999999999998874311    0      0011110           0111111100000           0


Q ss_pred             eEEEEEEEeCCCcchhhhhH----H--HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481           63 KEVKAQIWDTAGQERFRAVT----S--AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~----~--~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                      ....+.++||+|........    .  ..+..+|.+++|+|++.++.   .......+....+   ..-+|+||.|....
T Consensus       174 ~~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~---av~~a~~F~~~l~---i~gvIlTKlD~~a~  247 (437)
T PRK00771        174 KKADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQ---AKNQAKAFHEAVG---IGGIIITKLDGTAK  247 (437)
T ss_pred             hcCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHH---HHHHHHHHHhcCC---CCEEEEecccCCCc
Confidence            12367899999965433221    1  12345789999999977642   1122222222111   23577899996431


Q ss_pred             CCCCHHHHHHHHHHcCCeEEEEc
Q 040481          137 RNVSTEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~~~~s  159 (222)
                        .  =.+.......+.|+..++
T Consensus       248 --~--G~~ls~~~~~~~Pi~fig  266 (437)
T PRK00771        248 --G--GGALSAVAETGAPIKFIG  266 (437)
T ss_pred             --c--cHHHHHHHHHCcCEEEEe
Confidence              1  223445566666654443

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=97.71  E-value=5.7e-05  Score=62.24  Aligned_cols=160  Identities=18%  Similarity=0.109  Sum_probs=96.5

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCC-------------------CCC----------CCccceeEEEEEEEEC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFN-------------------PHS----------KATIGVEFQTQSMEID   61 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~-------------------~~~----------~~~~~~~~~~~~~~~~   61 (222)
                      .++...+++.++|.-.+||||+-..++.....                   ..|          ...-+-+..+....+.
T Consensus        74 ~~pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FE  153 (501)
T KOG0459|consen   74 EYPKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFE  153 (501)
T ss_pred             CCCCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEE
Confidence            45566789999999999999987655321100                   000          0001233444444455


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---HHHHHHH--HHHHHhcCCCCCcEEEEEeCCCCCc-
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---FDSISRW--LDELKTHSDTTVARMLVGNKCDLES-  135 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~~~~~~~--~~~i~~~~~~~~p~iiv~nK~Dl~~-  135 (222)
                      ....++.+.|+||+..|-........++|..++|+++.-.+.   |+.-.+-  ...+.. ...-...|+++||+|-+. 
T Consensus       154 te~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lak-t~gv~~lVv~vNKMddPtv  232 (501)
T KOG0459|consen  154 TENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAK-TAGVKHLIVLINKMDDPTV  232 (501)
T ss_pred             ecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHH-hhccceEEEEEEeccCCcc
Confidence            556678899999999987777777788999999999855432   3333111  122211 122346688899999653 


Q ss_pred             -CCCCCHHH----HHHHHHHc------CCeEEEEccCCCCCHHHHHH
Q 040481          136 -IRNVSTEE----GKSLAEAE------GLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus       136 -~~~~~~~~----~~~~~~~~------~~~~~~~sa~~~~~i~~~~~  171 (222)
                       ......++    ...|....      ...|+++|..+|.++.+...
T Consensus       233 nWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  233 NWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             CcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence             12222222    22333322      24599999999999988653

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

Probab=97.70  E-value=0.0003  Score=47.61  Aligned_cols=82  Identities=20%  Similarity=0.187  Sum_probs=49.3

Q ss_pred             EEEEc-CCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           19 IVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        19 i~i~G-~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      |.+.| ..|+||||+...|...-.. ...+.       ..+..+. .+.+.++|+|+.....  ....+..+|.+|++++
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~-~~~~v-------l~~d~d~-~~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALAR-RGKRV-------LLIDLDP-QYDYIIIDTPPSLGLL--TRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh-CCCcE-------EEEeCCC-CCCEEEEeCcCCCCHH--HHHHHHHCCEEEEecc
Confidence            45666 6699999998776443211 11111       1111111 1567899999864332  3366788999999998


Q ss_pred             CCChhhHHHHHHHHH
Q 040481           98 ITRRTTFDSISRWLD  112 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~  112 (222)
                      .+ ..++..+..+++
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            74 445666666554

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.

>TIGR00959 ffh signal recognition particle protein

Probab=97.68  E-value=0.00046  Score=58.65  Aligned_cols=87  Identities=15%  Similarity=0.030  Sum_probs=48.8

Q ss_pred             EEEEEEEeCCCcchhhhhHHH------hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           64 EVKAQIWDTAGQERFRAVTSA------YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~------~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      .+.+.++||+|....+.....      ..-..+.+++|+|+..++.   ...+...+.....   ..=+|.||.|....-
T Consensus       182 ~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~---~~~~a~~f~~~v~---i~giIlTKlD~~~~~  255 (428)
T TIGR00959       182 GFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQD---AVNTAKTFNERLG---LTGVVLTKLDGDARG  255 (428)
T ss_pred             CCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchHH---HHHHHHHHHhhCC---CCEEEEeCccCcccc
Confidence            356789999995433221111      1234688999999976542   2223333332221   235779999964321


Q ss_pred             CCCHHHHHHHHHHcCCeEEEEcc
Q 040481          138 NVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      .    .+...+...++|+..+..
T Consensus       256 G----~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       256 G----AALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             c----HHHHHHHHHCcCEEEEeC
Confidence            1    256667777777655443

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.68  E-value=0.0011  Score=56.44  Aligned_cols=90  Identities=18%  Similarity=0.141  Sum_probs=51.1

Q ss_pred             EEEEEEeCCCcchhh----hhHHHhhc---CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           65 VKAQIWDTAGQERFR----AVTSAYYR---GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~----~~~~~~~~---~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      +.+.++|++|....+    .....++.   ...-+++|++++-..  ..+...+..+..   .+ +--+|+||.|.... 
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~--~~l~~~~~~f~~---~~-~~~vI~TKlDet~~-  372 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKY--EDLKDIYKHFSR---LP-LDGLIFTKLDETSS-  372 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCH--HHHHHHHHHhCC---CC-CCEEEEeccccccc-
Confidence            567899999964432    22333333   234678889986552  222222222222   11 22588999997532 


Q ss_pred             CCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481          138 NVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                         .-.+..+....+.|+..++  +|.+|
T Consensus       373 ---~G~i~~~~~~~~lPv~yit--~Gq~V  396 (424)
T PRK05703        373 ---LGSILSLLIESGLPISYLT--NGQRV  396 (424)
T ss_pred             ---ccHHHHHHHHHCCCEEEEe--CCCCC
Confidence               2246667788888866554  44554

>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=97.64  E-value=0.00046  Score=49.01  Aligned_cols=24  Identities=21%  Similarity=0.347  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .-+++.|++|+|||+|++.+....
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999997754

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.

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

Probab=97.58  E-value=0.00035  Score=50.11  Aligned_cols=107  Identities=15%  Similarity=0.149  Sum_probs=60.8

Q ss_pred             EEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECC
Q 040481           20 VIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDIT   99 (222)
Q Consensus        20 ~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~   99 (222)
                      +.-|.+|+|||++.-.+...-. ..-....-.+.+..   .....+.+.++|+|+..  .......+..+|.++++.+.+
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~-~~~~~~~~vd~D~~---~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~   77 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALA-KLGKRVLLLDADLG---LANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE   77 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHH-HCCCcEEEEECCCC---CCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC
Confidence            4568899999999766633211 00000000111100   01111567899999743  333456788999999999986


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481          100 RRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus       100 ~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      .. ++..+...++.+.... ...++.+|+|+.+..
T Consensus        78 ~~-s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~~  110 (139)
T cd02038          78 PT-SITDAYALIKKLAKQL-RVLNFRVVVNRAESP  110 (139)
T ss_pred             hh-HHHHHHHHHHHHHHhc-CCCCEEEEEeCCCCH
Confidence            43 4444444455554332 334677999998743

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.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.56  E-value=0.0018  Score=48.51  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            68999999999999999998754

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.56  E-value=0.00042  Score=48.72  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      |++.|++|+|||++++.+....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            6899999999999999997653

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.53  E-value=0.00086  Score=56.54  Aligned_cols=133  Identities=18%  Similarity=0.208  Sum_probs=69.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc-CCCC-------CCC--------------ccceeEEEEEEE------ECCeEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE-FNPH-------SKA--------------TIGVEFQTQSME------IDGKEVKAQ   68 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~-~~~~-------~~~--------------~~~~~~~~~~~~------~~~~~~~~~   68 (222)
                      ..++++|++||||||++..|.... ....       .++              ..+.++......      +....+.+.
T Consensus       224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D~V  303 (432)
T PRK12724        224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGSELI  303 (432)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCCEE
Confidence            468899999999999999986421 1000       000              011112111000      011245677


Q ss_pred             EEeCCCcchhh----hhHHHhhc-----CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC
Q 040481           69 IWDTAGQERFR----AVTSAYYR-----GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV  139 (222)
Q Consensus        69 i~D~~G~~~~~----~~~~~~~~-----~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~  139 (222)
                      ++||+|.....    ..+..++.     ...-+++|+|++...  +.+...+.....   .+ +-=+|+||.|-...  .
T Consensus       304 LIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~~~f~~---~~-~~glIlTKLDEt~~--~  375 (432)
T PRK12724        304 LIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVLKAYES---LN-YRRILLTKLDEADF--L  375 (432)
T ss_pred             EEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHHHHhcC---CC-CCEEEEEcccCCCC--c
Confidence            99999964321    12222222     134688999998774  222222222211   11 23689999997532  1


Q ss_pred             CHHHHHHHHHHcCCeEEEEc
Q 040481          140 STEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~s  159 (222)
                        =.+...+...+.|+..++
T Consensus       376 --G~il~i~~~~~lPI~ylt  393 (432)
T PRK12724        376 --GSFLELADTYSKSFTYLS  393 (432)
T ss_pred             --cHHHHHHHHHCCCEEEEe
Confidence              224556777787765444

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.52  E-value=0.0014  Score=52.37  Aligned_cols=140  Identities=20%  Similarity=0.197  Sum_probs=74.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC----------CC-----------CCccceeEEEEEEE---------E-CCeEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP----------HS-----------KATIGVEFQTQSME---------I-DGKEV   65 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~----------~~-----------~~~~~~~~~~~~~~---------~-~~~~~   65 (222)
                      -+++++|++|+||||++..+.......          .+           ....+.++....-.         . ....+
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~  155 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  155 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCC
Confidence            589999999999999998885431100          00           00011111110000         0 00145


Q ss_pred             EEEEEeCCCcchhhhh----HHHhh--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC
Q 040481           66 KAQIWDTAGQERFRAV----TSAYY--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV  139 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~----~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~  139 (222)
                      .+.++|++|....+..    +..++  ...+-+++|+|++...  ..+..++..+..   .+ +-=+|+||.|....   
T Consensus       156 D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~--~d~~~~~~~f~~---~~-~~~~I~TKlDet~~---  226 (270)
T PRK06731        156 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKD---IH-IDGIVFTKFDETAS---  226 (270)
T ss_pred             CEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCH--HHHHHHHHHhCC---CC-CCEEEEEeecCCCC---
Confidence            6789999996533211    22222  2346789999987542  222333333322   11 23688999997642   


Q ss_pred             CHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          140 STEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                       .-.+..++...+.|+..++  +|.+|.+
T Consensus       227 -~G~~l~~~~~~~~Pi~~it--~Gq~vp~  252 (270)
T PRK06731        227 -SGELLKIPAVSSAPIVLMT--DGQDVKK  252 (270)
T ss_pred             -ccHHHHHHHHHCcCEEEEe--CCCCCCc
Confidence             2234556777787765443  3444543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.51  E-value=0.00093  Score=55.60  Aligned_cols=141  Identities=16%  Similarity=0.187  Sum_probs=72.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCC----------CCCCCc-----------cceeEEEEEEE--E-------C-CeE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFN----------PHSKAT-----------IGVEFQTQSME--I-------D-GKE   64 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~----------~~~~~~-----------~~~~~~~~~~~--~-------~-~~~   64 (222)
                      .-.++++|+.|+||||++..|......          ..+...           .+..+....-.  +       . ...
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~  285 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVNC  285 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCC
Confidence            346899999999999999988542100          001000           11111111000  0       0 013


Q ss_pred             EEEEEEeCCCcchhhhh----HHHhhc--CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           65 VKAQIWDTAGQERFRAV----TSAYYR--GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~----~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                      +.+.++||+|....+..    ...+..  ..+.+++|.++...  ...+...+....   ..+ +--+|+||.|....  
T Consensus       286 ~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~--~~d~~~i~~~f~---~l~-i~glI~TKLDET~~--  357 (407)
T PRK12726        286 VDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMK--SADVMTILPKLA---EIP-IDGFIITKMDETTR--  357 (407)
T ss_pred             CCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCccc--HHHHHHHHHhcC---cCC-CCEEEEEcccCCCC--
Confidence            56789999997443222    222222  33566777776433  223333333222   111 23688999997532  


Q ss_pred             CCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          139 VSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                        .=.+..++...+.|+..++  +|.+|++
T Consensus       358 --~G~~Lsv~~~tglPIsylt--~GQ~Vpd  383 (407)
T PRK12726        358 --IGDLYTVMQETNLPVLYMT--DGQNITE  383 (407)
T ss_pred             --ccHHHHHHHHHCCCEEEEe--cCCCCCc
Confidence              2234557777888865554  3444443

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.50  E-value=0.0019  Score=58.34  Aligned_cols=152  Identities=12%  Similarity=0.102  Sum_probs=78.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC-CCC--C-------CCc-------------cceeEEEEEE-------EECCeEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF-NPH--S-------KAT-------------IGVEFQTQSM-------EIDGKEVKA   67 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~-~~~--~-------~~~-------------~~~~~~~~~~-------~~~~~~~~~   67 (222)
                      -|+++|+.||||||++..|.+... ...  .       ...             .+.++....-       .-....+.+
T Consensus       187 Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D~  266 (767)
T PRK14723        187 VLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKHL  266 (767)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCCE
Confidence            679999999999999999875431 000  0       000             0111111000       000123457


Q ss_pred             EEEeCCCcchhhhh----HHHh--hcCCCEEEEEEECCCh-hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC
Q 040481           68 QIWDTAGQERFRAV----TSAY--YRGAVGALIVYDITRR-TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS  140 (222)
Q Consensus        68 ~i~D~~G~~~~~~~----~~~~--~~~~d~vi~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~  140 (222)
                      .|+||+|....+..    ....  ....+-+++|+|++.. +.+..+.+.+...   ...+ +-=+|+||.|....    
T Consensus       267 VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~~~---~~~~-i~glIlTKLDEt~~----  338 (767)
T PRK14723        267 VLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYRHG---AGED-VDGCIITKLDEATH----  338 (767)
T ss_pred             EEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHhhc---ccCC-CCEEEEeccCCCCC----
Confidence            89999994332211    1111  1234568899999754 3344433333221   1111 23588999997632    


Q ss_pred             HHHHHHHHHHcCCeEEEEccCCCCCH-HHHH----HHHHHHHHH
Q 040481          141 TEEGKSLAEAEGLFFMETSALDSTNV-KSAF----EIVIREIYS  179 (222)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~sa~~~~~i-~~~~----~~i~~~~~~  179 (222)
                      .=.+..+....++|+..++  +|.+| +++.    +.+++.++.
T Consensus       339 ~G~iL~i~~~~~lPI~yit--~GQ~VPdDL~~a~~~~lv~~ll~  380 (767)
T PRK14723        339 LGPALDTVIRHRLPVHYVS--TGQKVPEHLELAQADELVDRAFA  380 (767)
T ss_pred             ccHHHHHHHHHCCCeEEEe--cCCCChhhcccCCHHHHHHHHhc
Confidence            2234556777787765554  45666 3432    345555553

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.43  E-value=0.00016  Score=59.60  Aligned_cols=60  Identities=27%  Similarity=0.400  Sum_probs=43.0

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCc
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   75 (222)
                      ......++|.|+|-|++||||+||+|....... ...|  |++.....+..+.   .+.|+|.||.
T Consensus       247 ~~lk~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~p--GvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  247 GELKTSIRVGIIGYPNVGKSSVINSLKRRKACNVGNVP--GVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             cccCcceEeeeecCCCCChhHHHHHHHHhccccCCCCc--cchhhhhheeccC---CceeccCCce
Confidence            345677999999999999999999998887633 2333  3444445554443   3669999994

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.43  E-value=0.0039  Score=52.40  Aligned_cols=138  Identities=13%  Similarity=0.113  Sum_probs=74.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC--------------CCCC-----------CccceeEEEEEEE-------ECCeE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN--------------PHSK-----------ATIGVEFQTQSME-------IDGKE   64 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~--------------~~~~-----------~~~~~~~~~~~~~-------~~~~~   64 (222)
                      ..|+++|+.|+||||.+..|......              ..+.           ...+.++......       -....
T Consensus       175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~  254 (388)
T PRK12723        175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKD  254 (388)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCC
Confidence            47899999999999999888542110              0000           0012222211110       00134


Q ss_pred             EEEEEEeCCCcchhhh----hHHHhhcCC--C-EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           65 VKAQIWDTAGQERFRA----VTSAYYRGA--V-GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~----~~~~~~~~~--d-~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      +.+.++||+|....+.    ....++...  + -+++|+|++...  ..+.+.+......   + +-=+|+||.|.... 
T Consensus       255 ~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~--~~~~~~~~~~~~~---~-~~~~I~TKlDet~~-  327 (388)
T PRK12723        255 FDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKT--SDVKEIFHQFSPF---S-YKTVIFTKLDETTC-  327 (388)
T ss_pred             CCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCH--HHHHHHHHHhcCC---C-CCEEEEEeccCCCc-
Confidence            5678999999543221    222333322  3 588999998773  2333333333221   1 33688999997532 


Q ss_pred             CCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481          138 NVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                         .=.+..++...+.|+..++  +|.+|
T Consensus       328 ---~G~~l~~~~~~~~Pi~yit--~Gq~v  351 (388)
T PRK12723        328 ---VGNLISLIYEMRKEVSYVT--DGQIV  351 (388)
T ss_pred             ---chHHHHHHHHHCCCEEEEe--CCCCC
Confidence               2234556777777765443  45666

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.41  E-value=0.00075  Score=40.13  Aligned_cols=45  Identities=20%  Similarity=0.147  Sum_probs=31.3

Q ss_pred             cCCCEEEEEEECC--ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           87 RGAVGALIVYDIT--RRTTFDSISRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        87 ~~~d~vi~v~d~~--~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      +-.++++|++|++  .+.+.+....++..++..-. +.|+++|.||+|
T Consensus        12 hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~-~~P~i~V~nK~D   58 (58)
T PF06858_consen   12 HLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFP-NKPVIVVLNKID   58 (58)
T ss_dssp             GT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTT-TS-EEEEE--TT
T ss_pred             hhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcC-CCCEEEEEeccC
Confidence            4468999999996  46788888888888877653 579999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.40  E-value=0.00074  Score=47.92  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF   41 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~   41 (222)
                      -|++.|+.|+|||||++.+.....
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999987643

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.40  E-value=0.00019  Score=54.63  Aligned_cols=23  Identities=48%  Similarity=0.549  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .|+|+||+|||||||++++-+.+
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCc
Confidence            68999999999999999997755

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.39  E-value=0.00035  Score=55.92  Aligned_cols=62  Identities=21%  Similarity=0.340  Sum_probs=38.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC----CCCccceeEEEEE-EEECCeEEEEEEEeCCCc
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH----SKATIGVEFQTQS-MEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~----~~~~~~~~~~~~~-~~~~~~~~~~~i~D~~G~   75 (222)
                      ....+.|.|+|-|++|||||+|++........    --...|.+..+.. +.+.... .+.++||||.
T Consensus       140 ~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp-~vy~iDTPGi  206 (335)
T KOG2485|consen  140 LNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRP-PVYLIDTPGI  206 (335)
T ss_pred             cCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCC-ceEEecCCCc
Confidence            34568999999999999999999855433211    1122333444443 3333222 3679999994

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.39  E-value=0.0018  Score=42.68  Aligned_cols=69  Identities=23%  Similarity=0.188  Sum_probs=44.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh-HHHhhcCCCEEEEEEE
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV-TSAYYRGAVGALIVYD   97 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-~~~~~~~~d~vi~v~d   97 (222)
                      +++.|..|+||||+...+...-...      +.    ....++    .+.++|+++....... .......+|.++++++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~------g~----~v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKR------GK----RVLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC------CC----eEEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            6788999999999998886543211      11    111112    4679999986543321 2455677899999998


Q ss_pred             CCCh
Q 040481           98 ITRR  101 (222)
Q Consensus        98 ~~~~  101 (222)
                      ....
T Consensus        68 ~~~~   71 (99)
T cd01983          68 PEAL   71 (99)
T ss_pred             Cchh
Confidence            7654

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

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.38  E-value=0.0032  Score=54.24  Aligned_cols=151  Identities=15%  Similarity=0.180  Sum_probs=76.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCC--C-C------CCc--------------cceeEEEEEEE-------ECCeEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNP--H-S------KAT--------------IGVEFQTQSME-------IDGKEVKA   67 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~--~-~------~~~--------------~~~~~~~~~~~-------~~~~~~~~   67 (222)
                      -++++|+.|+||||++..|.+.....  . .      ++.              .+.......-.       ..-.....
T Consensus       258 Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~~L~d~d~  337 (484)
T PRK06995        258 VFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALSELRNKHI  337 (484)
T ss_pred             EEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHHhccCCCe
Confidence            58999999999999999986532100  0 0      000              01111100000       00012346


Q ss_pred             EEEeCCCcchhhh---hHHHhhcC---CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH
Q 040481           68 QIWDTAGQERFRA---VTSAYYRG---AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST  141 (222)
Q Consensus        68 ~i~D~~G~~~~~~---~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~  141 (222)
                      .++|++|....+.   .....+..   ..-.++|+|++...  ..+.+....+..   .. .--+|+||.|...    ..
T Consensus       338 VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~--~~l~~i~~~f~~---~~-~~g~IlTKlDet~----~~  407 (484)
T PRK06995        338 VLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG--DTLNEVVQAYRG---PG-LAGCILTKLDEAA----SL  407 (484)
T ss_pred             EEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH--HHHHHHHHHhcc---CC-CCEEEEeCCCCcc----cc
Confidence            7999999443321   11122222   22368899997553  222222222222   22 3357889999653    22


Q ss_pred             HHHHHHHHHcCCeEEEEccCCCCCH-HHHH----HHHHHHHHHH
Q 040481          142 EEGKSLAEAEGLFFMETSALDSTNV-KSAF----EIVIREIYSN  180 (222)
Q Consensus       142 ~~~~~~~~~~~~~~~~~sa~~~~~i-~~~~----~~i~~~~~~~  180 (222)
                      -.+..+....++++..++  +|.+| +++.    +.+++.++..
T Consensus       408 G~~l~i~~~~~lPI~yvt--~GQ~VPeDL~~a~~~~lv~~ll~~  449 (484)
T PRK06995        408 GGALDVVIRYKLPLHYVS--NGQRVPEDLHLANKKFLLHRAFCA  449 (484)
T ss_pred             hHHHHHHHHHCCCeEEEe--cCCCChhhhccCCHHHHHHHHhcC
Confidence            345567777787765543  56666 4432    3455555543

>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=97.35  E-value=0.00018  Score=50.07  Aligned_cols=22  Identities=36%  Similarity=0.490  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|.|++||||||+.+.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999764

...

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.34  E-value=0.00016  Score=50.96  Aligned_cols=23  Identities=39%  Similarity=0.588  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|.|++|+|||++++.+....
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHh
Confidence            46899999999999999997653

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.34  E-value=0.0022  Score=47.67  Aligned_cols=37  Identities=22%  Similarity=0.268  Sum_probs=24.7

Q ss_pred             HHHHHHHcCCeEE--EEccCCCCCHHHHHHHHHHHHHHH
Q 040481          144 GKSLAEAEGLFFM--ETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       144 ~~~~~~~~~~~~~--~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      ++.++-+..+-+|  ++||.+.+-+.+++.-+-+.+.+-
T Consensus       164 ARaLameP~vmLFDEPTSALDPElVgEVLkv~~~LAeEg  202 (256)
T COG4598         164 ARALAMEPEVMLFDEPTSALDPELVGEVLKVMQDLAEEG  202 (256)
T ss_pred             HHHHhcCCceEeecCCcccCCHHHHHHHHHHHHHHHHhC
Confidence            3444444455555  699999999999998555544443

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.33  E-value=0.00024  Score=43.24  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..+|.|+.|+|||||++++.---
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            38999999999999999986543

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.32  E-value=0.0081  Score=43.30  Aligned_cols=23  Identities=35%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            56899999999999999998754

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK04195 replication factor C large subunit; Provisional

Probab=97.32  E-value=0.0052  Score=53.41  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..-++|.|++|+||||++++|....
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3468999999999999999997643

>PRK08118 topology modulation protein; Reviewed

Probab=97.32  E-value=0.0002  Score=53.10  Aligned_cols=24  Identities=33%  Similarity=0.505  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .+|+|+|++|||||||.+.|....
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            389999999999999999997643

>PRK10646 ADP-binding protein; Provisional

Probab=97.31  E-value=0.0018  Score=47.08  Aligned_cols=24  Identities=21%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF   41 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~   41 (222)
                      -|++-|+-|+|||||++.+...-.
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~Lg   53 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQALG   53 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            488999999999999999976543

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.29  E-value=0.00022  Score=53.40  Aligned_cols=22  Identities=36%  Similarity=0.700  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +|+|+|+|||||||+.+.|...
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999876

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.28  E-value=0.00063  Score=53.68  Aligned_cols=61  Identities=23%  Similarity=0.472  Sum_probs=42.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC----CccceeEEEEEEEECCeEEEEEEEeCCC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK----ATIGVEFQTQSMEIDGKEVKAQIWDTAG   74 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~D~~G   74 (222)
                      ...++|+.+|..|-|||||++.|.+-.+.....    |............-.+..+++.++||.|
T Consensus        40 GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   40 GFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             CceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            356899999999999999999999877643322    2222222222222255678899999999

>PRK07261 topology modulation protein; Provisional

Probab=97.27  E-value=0.00024  Score=52.93  Aligned_cols=22  Identities=45%  Similarity=0.643  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +|+|+|++|+|||||.+.|...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998654

>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=97.27  E-value=0.0022  Score=43.73  Aligned_cols=100  Identities=17%  Similarity=0.101  Sum_probs=56.6

Q ss_pred             EcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCCh
Q 040481           22 IGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRR  101 (222)
Q Consensus        22 ~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~  101 (222)
                      =+..|+||||+...|...-.........-.+.+...   .   ..+.++|+|+....  .....+..+|.+|++++.+. 
T Consensus         6 ~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~~~---~---~D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~~-   76 (106)
T cd03111           6 GAKGGVGATTLAANLAVALAKEAGRRVLLVDLDLQF---G---DDYVVVDLGRSLDE--VSLAALDQADRVFLVTQQDL-   76 (106)
T ss_pred             CCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCCCC---C---CCEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCCh-
Confidence            467789999987766432211101111111111100   0   05679999985433  33456788999999987754 


Q ss_pred             hhHHHHHHHHHHHHhcCCC-CCcEEEEEeC
Q 040481          102 TTFDSISRWLDELKTHSDT-TVARMLVGNK  130 (222)
Q Consensus       102 ~s~~~~~~~~~~i~~~~~~-~~p~iiv~nK  130 (222)
                      .++..+..+++.+...... ...+.+|+|+
T Consensus        77 ~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          77 PSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            3456666666666655433 3456677774

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.

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.26  E-value=0.0054  Score=50.78  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.+|.|..|+|||||++.++..
T Consensus         6 v~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         6 VTIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            4678899999999999999764

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>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=97.26  E-value=0.00023  Score=51.02  Aligned_cols=21  Identities=38%  Similarity=0.637  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+++|++|||||||++.|...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999743

...

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=97.24  E-value=0.0014  Score=47.04  Aligned_cols=31  Identities=19%  Similarity=0.251  Sum_probs=23.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKAT   48 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~   48 (222)
                      -|++-|+-|+|||||.+.+...-.......+
T Consensus        27 Vv~L~GdLGAGKTtf~rgi~~~Lg~~~~V~S   57 (149)
T COG0802          27 VVLLSGDLGAGKTTLVRGIAKGLGVDGNVKS   57 (149)
T ss_pred             EEEEEcCCcCChHHHHHHHHHHcCCCCcccC
Confidence            5788899999999999999776543433333

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.23  E-value=0.00033  Score=54.47  Aligned_cols=23  Identities=43%  Similarity=0.504  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -|+|+|++|+|||||++.+.+-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999997754

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.20  E-value=0.00061  Score=57.95  Aligned_cols=115  Identities=20%  Similarity=0.263  Sum_probs=72.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC------CCCC--------CccceeEEEEEEE----------------ECCeE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN------PHSK--------ATIGVEFQTQSME----------------IDGKE   64 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~------~~~~--------~~~~~~~~~~~~~----------------~~~~~   64 (222)
                      +.-++.++.+...|||||-..|......      .+..        ...++++....+.                -++.+
T Consensus        18 NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~   97 (842)
T KOG0469|consen   18 NIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNG   97 (842)
T ss_pred             ccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCcc
Confidence            3346788899999999999998543211      0000        1111222111111                13456


Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL  133 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl  133 (222)
                      +-++++|.||+-.|.+...+.++-.|+.++|+|..++--.+.-..+.+.+...   -+| ++++||.|-
T Consensus        98 FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~ER---IkP-vlv~NK~DR  162 (842)
T KOG0469|consen   98 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAER---IKP-VLVMNKMDR  162 (842)
T ss_pred             eeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHhh---ccc-eEEeehhhH
Confidence            77899999999999999999999999999999998763211111222333222   235 888999994

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.20  E-value=0.0007  Score=47.34  Aligned_cols=25  Identities=28%  Similarity=0.316  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEF   41 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~   41 (222)
                      --|++-|+-|+|||||++.+...-.
T Consensus        16 ~vi~L~GdLGaGKTtf~r~l~~~lg   40 (123)
T PF02367_consen   16 DVILLSGDLGAGKTTFVRGLARALG   40 (123)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3588999999999999999976543

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.18  E-value=0.00031  Score=54.24  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -|+|+||+|||||||++.+-+-.
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            47999999999999999886544

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.13  E-value=0.00039  Score=49.45  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEEccCCCccccceeeecccc
Confidence            57999999999999999988754

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.10  E-value=0.00027  Score=52.62  Aligned_cols=23  Identities=39%  Similarity=0.583  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      =+++.||+|+|||||+++|+...
T Consensus         6 l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           6 LIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            46889999999999999998766

>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=97.09  E-value=0.00054  Score=42.85  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |++.|++|+||||+.++|...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999999765

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.07  E-value=0.00045  Score=54.44  Aligned_cols=22  Identities=36%  Similarity=0.363  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|+||.|||||||++++.+-
T Consensus        30 i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          30 ITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3689999999999999999773

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.06  E-value=0.0033  Score=52.00  Aligned_cols=97  Identities=15%  Similarity=0.158  Sum_probs=54.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC----cCC------CCC-----------CCccceeEEEEEEEE-------------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN----EFN------PHS-----------KATIGVEFQTQSMEI-------------   60 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~----~~~------~~~-----------~~~~~~~~~~~~~~~-------------   60 (222)
                      ..--|.++|-.|+||||.+-.|...    .+.      ...           -...+++++..+...             
T Consensus       100 kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~f  179 (483)
T KOG0780|consen  100 KPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDRF  179 (483)
T ss_pred             CCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHHHHH
Confidence            3346789999999999988766331    110      000           001123333322211             


Q ss_pred             CCeEEEEEEEeCCCcchhh-hhHH-----HhhcCCCEEEEEEECCChhhHHHHHHHH
Q 040481           61 DGKEVKAQIWDTAGQERFR-AVTS-----AYYRGAVGALIVYDITRRTTFDSISRWL  111 (222)
Q Consensus        61 ~~~~~~~~i~D~~G~~~~~-~~~~-----~~~~~~d~vi~v~d~~~~~s~~~~~~~~  111 (222)
                      ..+.+.+.|+||+|..... ++..     .-.-..|-+|+|.|++-++.-+...+-+
T Consensus       180 Kke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~aF  236 (483)
T KOG0780|consen  180 KKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAF  236 (483)
T ss_pred             HhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHHHH
Confidence            1255778899999943221 1111     1123468999999999888755554433

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.05  E-value=0.0043  Score=49.95  Aligned_cols=107  Identities=15%  Similarity=0.237  Sum_probs=64.4

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc----------------
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ----------------   75 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------------   75 (222)
                      ...+...++|+|+++.|||++++++....... .... .            ..+.+..+.+|..                
T Consensus        57 ~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~-~d~~-~------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lga  122 (302)
T PF05621_consen   57 KRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQ-SDED-A------------ERIPVVYVQMPPEPDERRFYSAILEALGA  122 (302)
T ss_pred             cccCCCceEEecCCCCcHHHHHHHHHHHCCCC-CCCC-C------------ccccEEEEecCCCCChHHHHHHHHHHhCc
Confidence            45566789999999999999999998744221 1111 1            1123444444431                


Q ss_pred             --------chhhhhHHHhhcCCCEEEEEEECCCh---hhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCC
Q 040481           76 --------ERFRAVTSAYYRGAVGALIVYDITRR---TTFDSISRWLDELKTHSD-TTVARMLVGNKCD  132 (222)
Q Consensus        76 --------~~~~~~~~~~~~~~d~vi~v~d~~~~---~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~D  132 (222)
                              ..........++....=++++|--+.   .+.......++.++...+ ..+|+|.+|+.--
T Consensus       123 P~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A  191 (302)
T PF05621_consen  123 PYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREA  191 (302)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHH
Confidence                    11122233566777888889987542   233444555565555443 6789999988643

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=97.03  E-value=0.0066  Score=51.25  Aligned_cols=28  Identities=32%  Similarity=0.385  Sum_probs=23.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .+..-+|+||||.|||||||+..|++..
T Consensus       610 iDmdSRiaIVGPNGVGKSTlLkLL~Gkl  637 (807)
T KOG0066|consen  610 IDMDSRIAIVGPNGVGKSTLLKLLIGKL  637 (807)
T ss_pred             ccccceeEEECCCCccHHHHHHHHhcCC
Confidence            3455699999999999999999988754

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.02  E-value=0.0036  Score=47.75  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      |+|+|++|+||||+++++.+..
T Consensus         4 ilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999987654

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.

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

Probab=97.01  E-value=0.013  Score=45.30  Aligned_cols=62  Identities=24%  Similarity=0.245  Sum_probs=36.9

Q ss_pred             EEEEEeC-CCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040481           66 KAQIWDT-AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL  133 (222)
Q Consensus        66 ~~~i~D~-~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl  133 (222)
                      .+.++|| +|.+.|.   +...+.+|.+|.|+|.+-. ++....+.........  -.++.+|+||.|-
T Consensus       135 e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~~-sl~taeri~~L~~elg--~k~i~~V~NKv~e  197 (255)
T COG3640         135 EVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSYK-SLRTAERIKELAEELG--IKRIFVVLNKVDE  197 (255)
T ss_pred             cEEEEecccchhhhc---cccccCCCEEEEEeCCcHH-HHHHHHHHHHHHHHhC--CceEEEEEeeccc
Confidence            3456665 3333333   3356789999999999755 3333333322222222  2588999999984

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.01  E-value=0.00041  Score=51.10  Aligned_cols=22  Identities=36%  Similarity=0.637  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ||+|.|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999765

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.00  E-value=0.019  Score=42.24  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            67899999999999999998754

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.99  E-value=0.00063  Score=51.32  Aligned_cols=23  Identities=35%  Similarity=0.533  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .|+|+|++|+|||||++.|.+..
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58999999999999999996643

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.98  E-value=0.0014  Score=50.37  Aligned_cols=31  Identities=29%  Similarity=0.351  Sum_probs=24.2

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -..+....-|+|+|++|+|||||++.|....
T Consensus         7 ~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~~   37 (206)
T PRK14738          7 FNKPAKPLLVVISGPSGVGKDAVLARMRERK   37 (206)
T ss_pred             cCCCCCCeEEEEECcCCCCHHHHHHHHHhcC
Confidence            3344455678899999999999999997543

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

Probab=96.98  E-value=0.027  Score=41.69  Aligned_cols=84  Identities=12%  Similarity=0.027  Sum_probs=50.6

Q ss_pred             EEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH
Q 040481           66 KAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK  145 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~  145 (222)
                      .+.++|+|+....  .....+..+|.+|++++.... ++..+..++..+....  .....+|+|+.+....  ...+...
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~~~~~~--~~~~~iv~N~~~~~~~--~~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEIS-SLRDADRVKGLLEALG--IKVVGVIVNRVRPDMV--EGGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCcc-hHHHHHHHHHHHHHcC--CceEEEEEeCCccccc--chhhHHH
Confidence            5779999975433  234556889999999988654 3455555555555422  1245688999986421  2222234


Q ss_pred             HHHHHcCCeEE
Q 040481          146 SLAEAEGLFFM  156 (222)
Q Consensus       146 ~~~~~~~~~~~  156 (222)
                      .+.+..+.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            45555666654

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.97  E-value=0.00066  Score=51.23  Aligned_cols=24  Identities=17%  Similarity=0.209  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .=|+|+||+|||||||+++|....
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcC
Confidence            348999999999999999998753

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.96  E-value=0.0012  Score=50.76  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=19.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -+|+||.|+|||||.+.+.+..
T Consensus        33 haiMGPNGsGKSTLa~~i~G~p   54 (251)
T COG0396          33 HAIMGPNGSGKSTLAYTIMGHP   54 (251)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            4799999999999999998865

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.96  E-value=0.0055  Score=51.70  Aligned_cols=23  Identities=17%  Similarity=0.447  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..++|.|++|+|||++++.+...
T Consensus        56 ~~~lI~G~~GtGKT~l~~~v~~~   78 (394)
T PRK00411         56 LNVLIYGPPGTGKTTTVKKVFEE   78 (394)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999764

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.95  E-value=0.00074  Score=50.24  Aligned_cols=23  Identities=43%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .|+|+|++|+|||||+|-+.+=.
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF~   49 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGFE   49 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHhcc
Confidence            68999999999999999887643

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.95  E-value=0.021  Score=41.58  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~   49 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLL   49 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            67899999999999999998754

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.93  E-value=0.00079  Score=48.18  Aligned_cols=21  Identities=52%  Similarity=0.727  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|+|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999864

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.92  E-value=0.00081  Score=45.78  Aligned_cols=20  Identities=35%  Similarity=0.614  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 040481           18 KIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~   37 (222)
                      .++++|++|+|||||++.+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            57999999999999999975

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.92  E-value=0.00092  Score=46.94  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEF   41 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~   41 (222)
                      ..++++|++|+||||+++.+.....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            3689999999999999999977654

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.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.90  E-value=0.00092  Score=49.97  Aligned_cols=21  Identities=33%  Similarity=0.396  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .++++|++|+|||||++.++.
T Consensus        23 ~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            789999999999999998863

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.89  E-value=0.00083  Score=50.19  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|||||||++.|...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998765

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.89  E-value=0.00082  Score=52.80  Aligned_cols=22  Identities=32%  Similarity=0.391  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|+||.|+|||||++.+++-
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLGl   53 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILGL   53 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999999983

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.89  E-value=0.0064  Score=53.07  Aligned_cols=23  Identities=22%  Similarity=0.391  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      =+++-||+|+||||.++.|....
T Consensus        47 iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen   47 ILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            45678999999999999997653

>PRK06217 hypothetical protein; Validated

Probab=96.86  E-value=0.00095  Score=50.18  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+|+|+|.+|||||||.++|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999764

>TIGR00235 udk uridine kinase

Probab=96.85  E-value=0.0012  Score=50.73  Aligned_cols=25  Identities=24%  Similarity=0.190  Sum_probs=21.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...-|+|+|++|+|||||++.|.+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999999764

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.85  E-value=0.001  Score=51.43  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            67999999999999999998754

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.85  E-value=0.001  Score=47.79  Aligned_cols=24  Identities=17%  Similarity=0.358  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +.|.|+|+.++|||||+..|.+..
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            368999999999999999997654

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.84  E-value=0.0012  Score=54.21  Aligned_cols=22  Identities=45%  Similarity=0.616  Sum_probs=20.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ++++||+|||||||++.+.+-.
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998755

>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=96.83  E-value=0.00095  Score=46.67  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|.|.+||||||+++.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999764

...

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.82  E-value=0.00097  Score=50.85  Aligned_cols=21  Identities=43%  Similarity=0.567  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -.+++||+|+|||||+++|-.
T Consensus        35 VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          35 VTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             eEEEECCCCcCHHHHHHHHHh
Confidence            358999999999999998843

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=96.82  E-value=0.021  Score=46.09  Aligned_cols=86  Identities=20%  Similarity=0.251  Sum_probs=48.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc--CCCEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR--GAVGALIV   95 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~vi~v   95 (222)
                      .|+|.|++|+||||+++.|-...+                          ..+|-.....+.........  ..+.+.++
T Consensus         8 ~i~i~G~~GsGKtt~~~~l~~~g~--------------------------~~~d~~~~~L~~~l~~~~~~~~~~~~~av~   61 (288)
T PRK05416          8 LVIVTGLSGAGKSVALRALEDLGY--------------------------YCVDNLPPSLLPKLVELLAQSGGIRKVAVV   61 (288)
T ss_pred             EEEEECCCCCcHHHHHHHHHHcCC--------------------------eEECCcCHHHHHHHHHHHHhcCCCCCeEEE
Confidence            689999999999999999842111                          11232222222222222222  13567788


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      +|+.....+......+..+...   +.++.+|.-..+
T Consensus        62 iD~r~~~~~~~~~~~~~~L~~~---g~~~~iI~L~a~   95 (288)
T PRK05416         62 IDVRSRPFFDDLPEALDELRER---GIDVRVLFLDAS   95 (288)
T ss_pred             EccCchhhHHHHHHHHHHHHHc---CCcEEEEEEECC
Confidence            8887765445555666666553   334444544444

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.81  E-value=0.0011  Score=50.84  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57999999999999999998754

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.81  E-value=0.0011  Score=49.59  Aligned_cols=23  Identities=43%  Similarity=0.582  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -|+|+|++|||||||++.|....
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccC
Confidence            47999999999999999998743

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.81  E-value=0.0011  Score=50.18  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999998754

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK01889 GTPase RsgA; Reviewed

Probab=96.81  E-value=0.0014  Score=54.60  Aligned_cols=23  Identities=35%  Similarity=0.624  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +++++|.+|+|||||++.|.+..
T Consensus       197 ~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        197 TVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             EEEEECCCCccHHHHHHHHHHhc
Confidence            78999999999999999998754

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.80  E-value=0.0011  Score=51.03  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            67999999999999999998753

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.80  E-value=0.0011  Score=51.30  Aligned_cols=21  Identities=43%  Similarity=0.593  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|+|++|+|||||++.+-+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            589999999999999999876

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.79  E-value=0.0012  Score=50.52  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999998754

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK14530 adenylate kinase; Provisional

Probab=96.78  E-value=0.0012  Score=50.99  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .+|+|+|+|||||||+.+.|..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3899999999999999999854

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.78  E-value=0.0012  Score=50.73  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.78  E-value=0.0012  Score=51.58  Aligned_cols=23  Identities=39%  Similarity=0.394  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999998754

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.77  E-value=0.0012  Score=50.32  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      |+|.|++|||||||+++|.+..
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999997653

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.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.76  E-value=0.0013  Score=50.60  Aligned_cols=23  Identities=35%  Similarity=0.540  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998753

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.76  E-value=0.0028  Score=47.22  Aligned_cols=44  Identities=20%  Similarity=0.085  Sum_probs=28.0

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |++++|+|+.++.+-.. ..+...+. ....+.|+++|+||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCC
Confidence            78999999988643111 22222221 1123479999999999964

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.75  E-value=0.0014  Score=50.16  Aligned_cols=23  Identities=43%  Similarity=0.496  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998754

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.75  E-value=0.0014  Score=49.43  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.|.+..
T Consensus        27 ~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          27 NILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            68999999999999999998643

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.74  E-value=0.0014  Score=50.46  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	222
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		6e-63
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		6e-63
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		4e-62
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		4e-62
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		5e-62
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		3e-61
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		4e-61
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		4e-58
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		8e-57
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		9e-57
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		4e-55
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		8e-53
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		2e-49
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		3e-49
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		6e-48
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		7e-48
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		2e-46
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		5e-46
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		6e-46
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-45
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		2e-45
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		5e-45
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		2e-43
4fmc_B	171	Espg-Rab1 Complex Length = 171		2e-43
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		3e-43
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		4e-43
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		4e-43
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		2e-42
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-42
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-42
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		3e-42
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		9e-42
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		3e-41
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		3e-41
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		4e-41
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		6e-41
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-40
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-40
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		3e-40
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		3e-40
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		3e-40
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		4e-40
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		1e-39
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		3e-39
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		5e-39
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		1e-38
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		4e-38
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-37
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		2e-37
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-37
2efc_B	181	Ara7-GdpATVPS9A Length = 181		6e-36
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		6e-36
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		1e-35
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		2e-35
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		5e-35
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		5e-35
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		5e-35
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		6e-35
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		7e-35
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-34
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-34
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-34
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		2e-34
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		2e-34
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		2e-34
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		2e-34
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-34
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		3e-34
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		3e-34
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		3e-34
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		3e-34
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		5e-34
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		7e-34
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		1e-33
4fmc_F	117	Espg-Rab1 Complex Length = 117		3e-33
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		3e-33
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		4e-33
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		5e-33
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		5e-33
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		7e-33
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		7e-33
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		8e-33
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		9e-33
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-32
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		6e-32
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		7e-32
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		7e-32
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		3e-31
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		1e-30
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		2e-30
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		4e-30
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		6e-30
1vg1_A	185	Gdp-bound Rab7 Length = 185		7e-30
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		8e-30
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		9e-30
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		2e-29
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		5e-29
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		1e-28
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		2e-28
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		4e-26
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		2e-23
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		4e-22
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		5e-22
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		5e-22
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		5e-22
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		2e-21
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		5e-21
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		6e-21
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		7e-21
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		8e-21
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		9e-21
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-20
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		2e-20
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		3e-20
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		4e-20
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		4e-20
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		5e-20
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		5e-20
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		4e-19
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		2e-18
3icq_B	171	Karyopherin Nuclear State Length = 171		2e-18
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		3e-18
4q21_A	189	Molecular Switch For Signal Transduction: Structura		7e-18
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		1e-17
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		1e-17
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		1e-17
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		1e-17
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		1e-17
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-17
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		2e-17
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-17
6q21_A	171	Molecular Switch For Signal Transduction: Structura		2e-17
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		2e-17
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		2e-17
2bku_A	177	Kap95p:rangtp Complex Length = 177		3e-17
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		3e-17
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		3e-17
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		4e-17
1byu_A	216	Canine Gdp-Ran Length = 216		5e-17
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		5e-17
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		5e-17
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		5e-17
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		5e-17
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		5e-17
1s1c_A	183	Crystal Structure Of The Complex Between The Human		5e-17
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		6e-17
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		7e-17
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		8e-17
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		8e-17
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		8e-17
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		9e-17
1wq1_R	166	Ras-Rasgap Complex Length = 166		9e-17
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		9e-17
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		9e-17
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		9e-17
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		9e-17
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		9e-17
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-16
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		1e-16
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		1e-16
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-16
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		2e-16
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-16
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-16
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		2e-16
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-16
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		2e-16
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		2e-16
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		2e-16
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		2e-16
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		2e-16
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		2e-16
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		2e-16
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		2e-16
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		2e-16
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		2e-16
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		3e-16
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-16
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		3e-16
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-16
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		3e-16
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		3e-16
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		4e-16
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		4e-16
1mh1_A	186	Small G-Protein Length = 186		5e-16
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		5e-16
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		5e-16
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		5e-16
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		6e-16
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		7e-16
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		7e-16
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		7e-16
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		7e-16
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		8e-16
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		8e-16
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		9e-16
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		9e-16
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-15
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		1e-15
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		1e-15
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		1e-15
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		1e-15
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		1e-15
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		1e-15
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		1e-15
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		1e-15
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		1e-15
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		1e-15
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		1e-15
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		1e-15
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		1e-15
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		2e-15
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		2e-15
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		2e-15
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-15
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-15
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		2e-15
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		2e-15
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-15
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		2e-15
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		2e-15
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		2e-15
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-15
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-15
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		3e-15
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		3e-15
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		4e-15
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		5e-15
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		5e-15
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		6e-15
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		6e-15
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		7e-15
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		7e-15
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		8e-15
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		9e-15
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		1e-14
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		1e-14
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		1e-14
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		1e-14
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		2e-14
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		2e-14
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		3e-14
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		3e-14
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		3e-14
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		3e-14
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		3e-14
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		2e-13
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		2e-13
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		2e-13
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		2e-13
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		2e-13
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		4e-13
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		5e-13
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		6e-13
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		1e-12
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		2e-12
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		4e-12
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		4e-12
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		6e-11
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		6e-11
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		7e-11
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		8e-11
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		9e-11
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		9e-11
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		9e-11
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		1e-10
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		1e-10
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		1e-10
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		1e-10
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		1e-10
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		1e-10
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		1e-10
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		1e-10
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		1e-10
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		1e-10
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		1e-10
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		1e-10
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		1e-10
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		1e-10
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		1e-10
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		2e-10
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		2e-10
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		2e-10
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		4e-10
2kb0_A	178	Cdc42(T35a) Length = 178		4e-10
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		5e-10
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		8e-10
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		9e-10
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		1e-09
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		2e-09
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		1e-06
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		2e-06
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		2e-06
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		2e-06
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		2e-05
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		2e-05
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		2e-05
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		2e-05
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		2e-05
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		2e-05
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		3e-05
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		3e-05
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		5e-05
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		5e-05
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		6e-05
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		1e-04
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		1e-04
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-04
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		1e-04
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		1e-04
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		2e-04
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		2e-04
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		2e-04
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		2e-04
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		2e-04
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		2e-04
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		2e-04
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		2e-04
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		2e-04
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		2e-04
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		4e-04
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		5e-04

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  236 bits (603), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 106/164 (64%), Positives = 137/164 (83%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct: 28  YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 87
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL 
Sbjct: 88  QERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 147
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY
Sbjct: 148 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  236 bits (603), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 106/164 (64%), Positives = 137/164 (83%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct: 19  YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 78
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL 
Sbjct: 79  QERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 138
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY
Sbjct: 139 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 182

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  234 bits (596), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 107/170 (62%), Positives = 138/170 (81%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct: 4   YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 63
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QER+R +TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL 
Sbjct: 64  QERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 123
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
            +R V T+E ++ AE   L F+ETSALDSTNV+ AF+ ++ EIY  VS+K
Sbjct: 124 HLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQK 173

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  233 bits (595), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 105/164 (64%), Positives = 136/164 (82%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct: 7   YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 66
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL 
Sbjct: 67  LERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY
Sbjct: 127 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 170

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  233 bits (595), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 105/164 (64%), Positives = 136/164 (82%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct: 28  YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 87
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL 
Sbjct: 88  LERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 147
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY
Sbjct: 148 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  231 bits (588), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 104/164 (63%), Positives = 135/164 (82%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct: 4   YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 63
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +   LVGNK DL 
Sbjct: 64  LERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLR 123
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY
Sbjct: 124 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 167

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  230 bits (587), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 104/164 (63%), Positives = 135/164 (82%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTAG
Sbjct: 10  YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG 69
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +   LVGNK DL 
Sbjct: 70  LERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLR 129
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY
Sbjct: 130 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 173

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  220 bits (561), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 104/172 (60%), Positives = 135/172 (78%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           LFKIV+IGDS VGKSNLLSR+ +NEFN  SK+TIGVEF T+++EI+GK +KAQIWDTAGQ
Sbjct: 13  LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQ 72
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ER+RA+TSAYYRGAVGALIVYDI++ +++++ + WL EL+ ++D  VA  L+GNK DL  
Sbjct: 73  ERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAH 132
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLN 187
           +R V TEE K+ A+   L F ETSAL+S NV  AFE +I  IY  VS+  ++
Sbjct: 133 LRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMD 184

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  216 bits (550), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 99/170 (58%), Positives = 132/170 (77%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           ++FK+V+IG+S VGK+NLLSR+ RNEF+  S+ TIGVEF T+++ +    VKAQIWDTAG
Sbjct: 9   FVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAG 68
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+RA+TSAYYRGAVGAL+V+D+T+  T+  + RWL EL  H++ T+  MLVGNK DL 
Sbjct: 69  LERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLS 128
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
             R V TEE +  AE  GL F+ETSALDSTNV+ AFE V++EI++ VS++
Sbjct: 129 QAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 178

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  216 bits (549), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 99/170 (58%), Positives = 132/170 (77%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           ++FK+V+IG+S VGK+NLLSR+ RNEF+  S+ TIGVEF T+++ +    VKAQIWDTAG
Sbjct: 24  FVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAG 83
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+RA+TSAYYRGAVGAL+V+D+T+  T+  + RWL EL  H++ T+  MLVGNK DL 
Sbjct: 84  LERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLS 143
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
             R V TEE +  AE  GL F+ETSALDSTNV+ AFE V++EI++ VS++
Sbjct: 144 QAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  210 bits (535), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 100/171 (58%), Positives = 138/171 (80%), Gaps = 2/171 (1%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTA 73
           YLFKIV+IGDS VGKSNLLSR+ R+EFN  SK+TIGVEF T+S+++ + K +KAQIWDTA
Sbjct: 6   YLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTA 65
Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+RA+TSAYYRGAVGAL+VYDIT++ +F++I +WL EL+ ++D+ +  +LVGNK DL
Sbjct: 66  GQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDL 125
Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
           + +R ++  +    A+ E L F+ETSAL++TNV+ AF  ++ EIY NV +K
Sbjct: 126 KHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEIY-NVRQK 175

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  203 bits (516), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 97/169 (57%), Positives = 130/169 (76%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFKIV+IGDS VGKSNLLSR+  +EFN  SK+TIGVEF T+++E++ K++KAQIWDTAG
Sbjct: 9   YLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAG 68
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+RA+TSAYYRGAVGALIVYDI++ +++++ + WL EL+ ++D  VA  L+GNK DL 
Sbjct: 69  LERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLA 128
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
            +R V T+E K+ A    + F ETSAL+S NV  AF  +I  I+  VS+
Sbjct: 129 HLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAIFQMVSK 177

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  192 bits (487), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 90/172 (52%), Positives = 120/172 (69%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK +IIGD+ VGKS LL ++    F P    TIGVEF  + + IDGK++K QIWDTAG
Sbjct: 20  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 79
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QE FR++T +YYRGA GAL+VYDITRR TF+ ++ WL++ + HS + +  ML+GNK DLE
Sbjct: 80  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 139
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVL 186
           S R+V  EEG++ A   GL FMETSA  + NV+ AF    +EIY  + + + 
Sbjct: 140 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGLF 191

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  191 bits (485), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 90/164 (54%), Positives = 118/164 (71%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK +IIGD+ VGKS LL ++    F P    TIGVEF  + + IDGK++K QIWDTAG
Sbjct: 9   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAG 68
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QE FR++T +YYRGA GAL+VYDITRR TF+ ++ WL++ + HS++ +  ML+GNK DLE
Sbjct: 69  QESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLE 128
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
           S R V  EEG++ A   GL FMETSA  ++NV+ AF    +EIY
Sbjct: 129 SRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIY 172

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  187 bits (474), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 88/180 (48%), Positives = 131/180 (72%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IG+S VGKS LL R++ + +     +TIGV+F+ +++E+DGK VK QIWDTAG
Sbjct: 7   YLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAG 66
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRG+ G +IVYD+T + +F+ +  WL E+  ++ +TV ++LVGNKCDL+
Sbjct: 67  QERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
             R V  +  K  A+A  + F+ETSALDSTNV+ AF  + R+I  ++S++ LN  + K E
Sbjct: 127 DKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKE 186

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  186 bits (473), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 88/180 (48%), Positives = 131/180 (72%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IG+S VGKS LL R++ + +     +TIGV+F+ +++E+DGK VK QIWDTAG
Sbjct: 7   YLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAG 66
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRG+ G +IVYD+T + +F+ +  WL E+  ++ +TV ++LVGNKCDL+
Sbjct: 67  QERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKAE 194
             R V  +  K  A+A  + F+ETSALDSTNV+ AF  + R+I  ++S++ LN  + K E
Sbjct: 127 DKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKE 186

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  182 bits (461), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 82/170 (48%), Positives = 124/170 (72%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGK+ +L R++ + FN    +TIG++F+ +++E+DGK +K QIWDTAG
Sbjct: 5   YLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAG 64
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +T+AYYRGA+G ++VYDIT   +FD+I  W+  ++ H+   V +M++GNKCD+ 
Sbjct: 65  QERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
             R VS E G+ LA   G+ FMETSA  + NV++AF  + R+I + + +K
Sbjct: 125 DKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKK 174

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  180 bits (457), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 81/169 (47%), Positives = 123/169 (72%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGK+ +L R++ + FN    +TIG++F+ +++E+DGK +K QIWDTAG
Sbjct: 7   YLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAG 66
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +T+AYYRGA+G ++VYDIT   +FD+I  W+  ++ H+   V +M++GNKCD+ 
Sbjct: 67  QERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
             R VS E G+ LA   G+ FMETSA  + NV++AF  + R+I + + +
Sbjct: 127 DKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 175

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  180 bits (456), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 85/166 (51%), Positives = 115/166 (69%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FK +IIGD  VGKS LL ++   +F      TIGVEF T+ +E+ G+++K QIWDTAG
Sbjct: 14  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG 73
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFRAVT +YYRGA GAL+VYDITRR+T++ +S WL + +  ++     +L+GNK DLE
Sbjct: 74  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE 133
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           + R+V+ EE K  AE  GL F+E SA    NV+ AF    ++IY N
Sbjct: 134 AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQN 179

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  179 bits (454), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 83/163 (50%), Positives = 121/163 (74%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IG+S VGKS LL R++ + +     +TIGV+F+ +++E+DGK VK QIWDTAG
Sbjct: 20  YLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAG 79
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRG+ G +IVYD+T + +F+ +  WL E+  ++ +TV ++LVGNKCDL+
Sbjct: 80  QERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK 139
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R V  +  K  A+A  + F+ETSALDSTNV+ AF  + R+I
Sbjct: 140 DKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQI 182

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  178 bits (452), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 84/167 (50%), Positives = 115/167 (68%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FK +IIGD  VGKS LL ++   +F      TIGVEF T+ +E+ G+++K QIWDTAG
Sbjct: 29  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG 88
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           Q RFRAVT +YYRGA GAL+VYDITRR+T++ +S WL + +  ++     +L+GNK DLE
Sbjct: 89  QGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE 148
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
           + R+V+ EE K  AE  GL F+E SA    NV+ AF    ++IY N+
Sbjct: 149 AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQNI 195

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  177 bits (449), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 83/167 (49%), Positives = 123/167 (73%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++ ++ K VK QIWDTAG
Sbjct: 8   YLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAG 67
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G +IVYD+T R +FD++ +W+ E+  ++   V ++LVGNKCDL 
Sbjct: 68  QERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLV 127
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
           S R V+++EG+ LA++ G+ F+ETSA ++ NV+ AF  +  EI   V
Sbjct: 128 SKRVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGEIKKRV 174

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  172 bits (435), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 78/163 (47%), Positives = 119/163 (73%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 15  YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 74
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL 
Sbjct: 75  QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 134
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           + + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI
Sbjct: 135 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  171 bits (434), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 78/163 (47%), Positives = 119/163 (73%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 5   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 64
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL 
Sbjct: 65  QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           + + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI
Sbjct: 125 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  171 bits (433), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 78/163 (47%), Positives = 119/163 (73%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 24  YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 83
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL 
Sbjct: 84  QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 143
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           + + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI
Sbjct: 144 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 186

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  171 bits (432), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 78/163 (47%), Positives = 118/163 (72%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 32  YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 91
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL 
Sbjct: 92  QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 151
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           + + V     K  A++ G+ F+ETSA ++TNV+ +F     EI
Sbjct: 152 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEI 194

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  170 bits (431), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 77/163 (47%), Positives = 119/163 (73%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGK+ LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 15  YLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 74
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL 
Sbjct: 75  QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 134
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           + + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI
Sbjct: 135 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  169 bits (427), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 77/162 (47%), Positives = 118/162 (72%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           LFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 65
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL +
Sbjct: 66  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 125
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI
Sbjct: 126 KKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  168 bits (425), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 76/160 (47%), Positives = 115/160 (71%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FKI+IIG+S+VGK++ L RYA + F P   +T+G++F+ +++  + K +K QIWDTAG
Sbjct: 4   YMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAG 63
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QER+R +T+AYYRGA+G +++YDIT   +F+++  W  ++KT+S      +LVGNKCD+E
Sbjct: 64  QERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME 123
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
             R VS+E G+ LA+  G  F E SA D+ NVK  FE ++
Sbjct: 124 DERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 163

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  168 bits (425), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 79/172 (45%), Positives = 121/172 (70%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 8   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 67
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + ++ ++ +WL E+  ++   V ++LVGNK DL 
Sbjct: 68  QERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLT 127
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVL 186
           + + V     K  A++ G+ F+ETSA ++TNV+ AF  +  EI   +  +VL
Sbjct: 128 TKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMGLEVL 179

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  167 bits (424), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 77/163 (47%), Positives = 118/163 (72%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 7   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 66
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVG KCDL 
Sbjct: 67  QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLT 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           + + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI
Sbjct: 127 TKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 169

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  166 bits (420), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 77/163 (47%), Positives = 117/163 (71%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAG
Sbjct: 8   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAG 67
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS+YYRGA G ++VYD+T + ++ ++ +WL E+  ++   V ++LVGNK DL 
Sbjct: 68  QERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLT 127
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           + + V     K  A++ G+ F+ETSA ++TNV+ AF  +  EI
Sbjct: 128 TKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  164 bits (416), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 77/168 (45%), Positives = 118/168 (70%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FK++IIG+S+VGK++ L RYA + F P   +T+G++F+ +++    K VK QIWDTAG
Sbjct: 22  YMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAG 81
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QER+R +T+AYYRGA+G +++YDIT   +F+++  W  ++KT+S      +LVGNKCD+E
Sbjct: 82  QERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDME 141
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
             R V TE+G+ LAE  G  F E SA ++ +V+ AFE ++  I   +S
Sbjct: 142 EERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS 189

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  164 bits (416), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 75/160 (46%), Positives = 116/160 (72%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           FR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL + +
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 120
Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI
Sbjct: 121 VVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 160

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  164 bits (415), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 75/155 (48%), Positives = 113/155 (72%), Gaps = 1/155 (0%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           + KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+GK+VK QIWDTAGQ
Sbjct: 3   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 62
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ERFR +T+AYYRGA+G ++VYDIT   TF +I +W   +  H++     +LVGNK D+E+
Sbjct: 63  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET 122
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
            R V+ ++G++LA+  G+ F+E+SA +  NV   F
Sbjct: 123 -RVVTADQGEALAKELGIPFIESSAKNDDNVNEIF 156

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 76/168 (45%), Positives = 121/168 (72%), Gaps = 6/168 (3%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +LFK+V++GD++VGK+ ++ R+    F+    +TIGV+F  +++EI GK VK QIWDTAG
Sbjct: 28  FLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAG 87
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +T +YYR A GA++ YDIT+R++F S+  W+++++ ++ + + ++L+GNK DL 
Sbjct: 88  QERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLS 147
Query: 135 SIRNVSTEEGKSLAEA-EGLFFMETSALDSTNVKSAF-----EIVIRE 176
            +R VS  E +SLAE  + L  +ETSA DS+NV+ AF     E+++R 
Sbjct: 148 ELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRH 195

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  162 bits (410), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 73/155 (47%), Positives = 113/155 (72%), Gaps = 1/155 (0%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           + KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+GK+VK Q+WDTAGQ
Sbjct: 20  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 79
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ERFR +T+AYYRGA+G ++VYD+T   TF +I +W   +  H++     +LVGNK D+E+
Sbjct: 80  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET 139
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
            R V+ ++G++LA+  G+ F+E+SA +  NV   F
Sbjct: 140 -RVVTADQGEALAKELGIPFIESSAKNDDNVNEIF 173

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  162 bits (410), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 73/155 (47%), Positives = 113/155 (72%), Gaps = 1/155 (0%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           + KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+GK+VK Q+WDTAGQ
Sbjct: 7   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 66
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ERFR +T+AYYRGA+G ++VYD+T   TF +I +W   +  H++     +LVGNK D+E+
Sbjct: 67  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET 126
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
            R V+ ++G++LA+  G+ F+E+SA +  NV   F
Sbjct: 127 -RVVTADQGEALAKELGIPFIESSAKNDDNVNEIF 160

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  161 bits (407), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 78/176 (44%), Positives = 115/176 (65%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y FKI+IIG+S+VGK++ L RYA + F P   +T+G++F+ +++  + K +K QIWDTAG
Sbjct: 7   YXFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAG 66
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ER+R +T+AYYRGA G ++ YDIT   +F+++  W  ++KT+S      +LVGNKCD E
Sbjct: 67  LERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXE 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDS 190
             R VS+E G+ LA+  G  F E SA D+ NVK  FE ++  I    S  +  +D 
Sbjct: 127 DERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKXSESLDTADP 182

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  161 bits (407), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 73/160 (45%), Positives = 112/160 (70%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FK+++IG+S+VGK++ L RYA + F P   +T+G++F+ +++    K +K QIWDTAG
Sbjct: 21  YMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAG 80
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QER+R +T+AYYRGA+G L++YDI  + +F ++  W  ++KT+S      +LVGNKCDLE
Sbjct: 81  QERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLE 140
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
             R V  E+G+ LA+  G  F E SA ++ NVK  FE ++
Sbjct: 141 DERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLV 180

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  161 bits (407), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 75/153 (49%), Positives = 110/153 (71%), Gaps = 1/153 (0%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+GK+VK QIWDTAGQER
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQER 64
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           FR +T+AYYRGA G ++VYDIT   TF +I +W   +  H++     +LVGNK D E+ R
Sbjct: 65  FRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXET-R 123
Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
            V+ ++G++LA+  G+ F+E+SA +  NV   F
Sbjct: 124 VVTADQGEALAKELGIPFIESSAKNDDNVNEIF 156

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  160 bits (406), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 80/175 (45%), Positives = 112/175 (64%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +LFK ++IG +  GKS LL ++  N+F   S  TIGVEF ++ + + GK VK QIWDTAG
Sbjct: 24  FLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAG 83
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR+VT +YYRGA GAL+VYDIT R T++S++ WL + +T +   +  +L GNK DL+
Sbjct: 84  QERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLD 143
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSD 189
             R V+  E    A+   L F+ETSAL   NV+ AF    R I + +    L+ +
Sbjct: 144 PEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGELDPE 198

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  159 bits (402), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 73/153 (47%), Positives = 110/153 (71%), Gaps = 1/153 (0%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+GK+VK Q+WDTAGQER
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQER 64
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           FR +T+AYYRGA G ++VYD+T   TF +I +W   +  H++     +LVGNK D E+ R
Sbjct: 65  FRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXET-R 123
Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
            V+ ++G++LA+  G+ F+E+SA +  NV   F
Sbjct: 124 VVTADQGEALAKELGIPFIESSAKNDDNVNEIF 156

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  157 bits (398), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 81/174 (46%), Positives = 117/174 (67%), Gaps = 5/174 (2%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +LFK++IIGDS VGKS+LL R+A N F+     TIGV+F+ +++EI+G++VK QIWDTAG
Sbjct: 8   HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAG 67
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR +TS YYRG  G ++VYD+T   +F ++ RWL E+  + D  V R+LVGNK D  
Sbjct: 68  QERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDP 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF----EIVIREIYSNVSRK 184
             + V TE+    A   G+   ETSA ++ NV+  F    E+V+R    N++++
Sbjct: 127 ERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQ 180

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  157 bits (396), Expect = 5e-39,   Method: Compositional matrix adjust.
 Identities = 77/175 (44%), Positives = 113/175 (64%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +LFK ++IG++  GKS LL ++   +F   S  TIGVEF ++ + + GK VK QIWDTAG
Sbjct: 9   FLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAG 68
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR+VT +YYRGA GAL+VYDIT R T+++++ WL + +  +   +  +L GNK DL+
Sbjct: 69  QERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD 128
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSD 189
           + R V+  E    A+   L F+ETSAL   NV+ AF    R+I + +    L+ +
Sbjct: 129 ADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDPE 183

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  155 bits (393), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 71/156 (45%), Positives = 108/156 (69%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +LFKIV+IG++ VGK+ L+ R+ +  F P   ATIGV+F  +++EI+G++VK QIWDTAG
Sbjct: 25  FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAG 84
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR++T +YYR A   ++ YDIT   +F  +  WL E++ ++   V  +LVGNK DL 
Sbjct: 85  QERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLA 144
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
             R VS +  +  +EA+ ++++ETSA +S NV+  F
Sbjct: 145 ERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLF 180

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  154 bits (389), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 77/173 (44%), Positives = 111/173 (64%), Gaps = 8/173 (4%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +LFK ++IG++  GKS LL ++   +F   S  TIGVEF ++ + + GK VK QIWDTAG
Sbjct: 10  FLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAG 69
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFR+VT +YYRGA GAL+VYDIT R T+++++ WL + +  +   +  +L GNK DL+
Sbjct: 70  QERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD 129
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLN 187
           + R V+  E    A+   L F+ETSAL   +V+ AF           +RK+LN
Sbjct: 130 ADREVTFLEASRFAQENELMFLETSALTGEDVEEAF--------VQCARKILN 174

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  152 bits (385), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 76/162 (46%), Positives = 106/162 (65%), Gaps = 2/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            KI+IIG+S VGKS+LL R+  + F+P   ATIGV+F+ +++ +DG + K  IWDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLES 135
           RFR +T +YYRGA G ++VYD+TRR TF  +  WL+EL+T+ +   +   LVGNK D E+
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKIDKEN 135
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V   EG   A      F+E SA     V+ AFE ++ +I
Sbjct: 136 -REVDRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKI 176

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  152 bits (383), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 74/162 (45%), Positives = 109/162 (67%), Gaps = 1/162 (0%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           FK++++GDS VGK+ LL R+    F   +  +T+G++F+ + +++DG +VK Q+WDTAGQ
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 70
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ERFR+VT AYYR A   L++YD+T + +FD+I  WL E+  ++   VA ML+GNK D   
Sbjct: 71  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH 130
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G+ LA+  GL FMETSA    NV  AF  + +E+
Sbjct: 131 ERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  151 bits (382), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 76/173 (43%), Positives = 110/173 (63%), Gaps = 8/173 (4%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +LFK ++IG++  GKS LL ++   +F   S  TIGVEF ++ + + GK VK QIWDTAG
Sbjct: 7   FLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAG 66
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
            ERFR+VT +YYRGA GAL+VYDIT R T+++++ WL + +  +   +  +L GNK DL+
Sbjct: 67  LERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD 126
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLN 187
           + R V+  E    A+   L F+ETSAL   +V+ AF           +RK+LN
Sbjct: 127 ADREVTFLEASRFAQENELMFLETSALTGEDVEEAF--------VQCARKILN 171

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  147 bits (370), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 65/160 (40%), Positives = 104/160 (65%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD   GKS+L+ R+ +++F    ++TIG  F +Q++ ++   VK +IWDTAGQER
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           + ++   YYRGA  A+IV+D+T + +F+   +W+ EL+   +  +   L GNK DL   R
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR 133
Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            V+ E+ ++ A+  GLFFMETSA  +TNVK  F  + R +
Sbjct: 134 KVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRL 173

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  147 bits (370), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 69/161 (42%), Positives = 105/161 (65%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+ + ++TIG  F TQS+ +D   VK +IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT + TF     W+ EL+  +  ++   L GNK DL + 
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANK 128
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V  EE ++ A+   L FMETSA  + NV   F  + +++
Sbjct: 129 RMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLFLAIAKKL 169

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  145 bits (367), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 65/168 (38%), Positives = 111/168 (66%), Gaps = 1/168 (0%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           +  +++IIG   VGK++L+ R+  + F    K+T+GV+F+ +++E+ GK+++ QIWDTAG
Sbjct: 25  FKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAG 84
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERF ++TSAYYR A G ++VYDIT++ TFD + +W+  +  ++      +LVGNK D E
Sbjct: 85  QERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE 144
Query: 135 SIRNVSTEEGKSLAEA-EGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
           + R ++ ++G+  A+   G+ F E SA D+ NV   F  ++ +I   +
Sbjct: 145 TDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 68/161 (42%), Positives = 103/161 (63%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+ + ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   TF     W+ EL+  +   +   L GNK DL S 
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 123
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V  +E ++ A+   L FMETSA  + NV   F  + +++
Sbjct: 124 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 164

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  144 bits (362), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 69/164 (42%), Positives = 103/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 128 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 171

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  144 bits (362), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 69/164 (42%), Positives = 103/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  144 bits (362), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 65/163 (39%), Positives = 101/163 (61%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+ ++GD+ VGKS+++ R+  + F+P+   TIG  F T++++   +  K  IWDTAGQE
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFRA+   YYRG+  A+IVYDIT+  TF ++  W+ EL+ H   ++   + GNKCDL  +
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 125
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
           R V   + K  A++    F+ETSA ++ N+   F  + R I S
Sbjct: 126 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 168

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  144 bits (362), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 68/157 (43%), Positives = 107/157 (68%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + V+ Q+WDTAGQE
Sbjct: 15  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   S+W+D+++T   + V  MLVGNK DL   
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK 134
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV 173
           R VSTEEG+  A+   + F+ETSA    NVK  F  V
Sbjct: 135 RQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 171

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  143 bits (361), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 63/161 (39%), Positives = 103/161 (63%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+ ++GD+ VGKS+++ R+ ++ F+ +   TIG  F T+++    +  K  IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RF ++   YYRG+  A+IVYDIT++ +F ++ +W+ ELK H    +   + GNKCDL  I
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 143
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V  ++ K  AE+ G   +ETSA ++ N++  F+ + R+I
Sbjct: 144 REVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 184

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  142 bits (359), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 102/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+S VGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 102/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+S VGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 67/161 (41%), Positives = 102/161 (63%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+ + ++TI   F TQ++ +D   VK +IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   TF     W+ EL+  +   +   L GNK DL S 
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V  +E ++ A+   L FMETSA  + NV   F  + +++
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 67/161 (41%), Positives = 102/161 (63%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+ + ++TIG  F TQ++ +D   VK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   TF     W+ EL+  +   +   L GNK DL S 
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V  +E ++ A+   L FMETSA  + NV   F  + +++
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 102/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L F ETSA  S NV   F  + +++  N
Sbjct: 128 RAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAIAKKLPKN 171

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 102/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+S VGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 102/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+S VGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  141 bits (356), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 102/164 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+S VGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  141 bits (356), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 65/157 (41%), Positives = 106/157 (67%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + ++ Q+WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   ++W+D+++T   + V  MLVGNK DL   
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV 173
           R VS EEG+  A+   + F+ETSA    NVK  F  V
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 163

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 71/167 (42%), Positives = 105/167 (62%), Gaps = 6/167 (3%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +KIV+ GD+AVGKS+ L R  +NEF  +  AT+GV+FQ +++ +DG+    Q+WDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL--- 133
           RFR++  +Y+R A G L++YD+T   +F +I  W+D ++  +  TV  MLVGNK D+   
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDT 148
Query: 134 ---ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
              E  + V    G+ LA   G  F ETSA D +N+  A   + RE+
Sbjct: 149 AATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREV 195

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 64/163 (39%), Positives = 100/163 (61%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+ ++GD+ VGKS+++ R+  + F+P+   TIG  F T++++   +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFRA+   YYRG+  A+IVYDIT+  TF ++  W+ EL+ H   ++   + GNKCDL  +
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
           R V   + K  A++    F+ETSA ++ N+   F  + R I S
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 169

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 64/154 (41%), Positives = 105/154 (68%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + V+ Q+WDTAGQE
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   S+W+D+++T   + V  MLVGNK DL   
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADK 122
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
           R ++ EEG+  A+   + F+ETSA    NVK  F
Sbjct: 123 RQITIEEGEQRAKELSVMFIETSAKTGYNVKQLF 156

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score =  140 bits (354), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 65/154 (42%), Positives = 105/154 (68%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + V+ Q+WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   ++W+D+++T   + V  MLVGNK DL   
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 121
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
           R VS EEG+  A+   + F+ETSA    NVK  F
Sbjct: 122 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLF 155

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  140 bits (352), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 71/167 (42%), Positives = 108/167 (64%), Gaps = 6/167 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           LFKI+++GD  VGKS+L++RY  N+F+     TIGVEF  + +E+DG  V  QIWDTAGQ
Sbjct: 11  LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 70
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNKC 131
           ERFR++ + +YRG+   L+ + +    +F ++S W  E   ++D     +   +++GNK 
Sbjct: 71  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKT 130
Query: 132 DLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
           D++  R VSTEE ++  +  G + + ETSA DSTNV +AFE  +R I
Sbjct: 131 DIKE-RQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFEEAVRRI 176

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  139 bits (351), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 67/161 (41%), Positives = 101/161 (62%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++G+SAVGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           R+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK DL + 
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 125
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V  +E +S A+   L FMETSA  S NV   F  + +++
Sbjct: 126 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 166

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  138 bits (347), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 59/115 (51%), Positives = 89/115 (77%)
Query: 19  IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF 78
           +++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+DGK +K QIWDTAGQERF
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 79  RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           R +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++   V ++LVGNKCDL
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  138 bits (347), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 64/157 (40%), Positives = 105/157 (66%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + ++ Q+WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   ++W+D+++T   + V  MLVGNK DL   
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 133
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV 173
           R VS EEG+  A+   + F+ETSA    NVK  F  V
Sbjct: 134 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 170

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 65/157 (41%), Positives = 105/157 (66%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + V+ Q+WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   ++W+D+++T   + V  MLVGNK DL   
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV 173
           R VS EEG+  A+   + F+ETSA    NVK  F  V
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 163

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  137 bits (345), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 69/167 (41%), Positives = 107/167 (64%), Gaps = 6/167 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           LFK++++GD  VGKS+L++RY  N+F+     TIGVEF  + +E+DG  V  QIWDTAGQ
Sbjct: 7   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 66
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNKC 131
           ERFR++ + +YRG+   L+ + +    +F ++S W  E   ++D     +   +++GNK 
Sbjct: 67  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 126
Query: 132 DLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
           D+ S R VSTEE ++     G + + ETSA D+TNV +AFE  +R +
Sbjct: 127 DI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 172

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score =  137 bits (345), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 69/167 (41%), Positives = 107/167 (64%), Gaps = 6/167 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           LFK++++GD  VGKS+L++RY  N+F+     TIGVEF  + +E+DG  V  QIWDTAGQ
Sbjct: 9   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 68
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNKC 131
           ERFR++ + +YRG+   L+ + +    +F ++S W  E   ++D     +   +++GNK 
Sbjct: 69  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 128
Query: 132 DLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
           D+ S R VSTEE ++     G + + ETSA D+TNV +AFE  +R +
Sbjct: 129 DI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 174

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  137 bits (344), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 65/157 (41%), Positives = 105/157 (66%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + V+ Q+WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   ++W+D+++T   + V  MLVGNK DL   
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 136
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV 173
           R VS EEG+  A+   + F+ETSA    NVK  F  V
Sbjct: 137 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 173

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  136 bits (343), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 66/156 (42%), Positives = 94/156 (60%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y FK+V++G+  VGK++L+ RY  N+FN     T+G  F T+ + I GK V   IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERF A+   YYR + GA++VYDIT   +F  +  W+ EL+      +   +VGNK DLE
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
             R+VS +E +S AE+ G     TSA  +  ++  F
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  136 bits (343), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 68/170 (40%), Positives = 106/170 (62%), Gaps = 5/170 (2%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           +FKI++IGDS VGK+ L  R+    F   ++ATIGV+F+ ++++IDG+ +K Q+WDTAGQ
Sbjct: 20  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 79
Query: 76  ERFR-AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDL 133
           ERFR ++   YYR     + VYD+T   +F S+  W++E K H     + R+LVGNKCDL
Sbjct: 80  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 139
Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSAL---DSTNVKSAFEIVIREIYSN 180
            S   V T+  +  A+   +   ETSA    D+ +V++ F  +  ++ S+
Sbjct: 140 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKSH 189

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  136 bits (343), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 67/169 (39%), Positives = 108/169 (63%), Gaps = 6/169 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++GD  VGKS+L++RY  N+F+  +  TIGVEF  + +E+DG+ V  QIWDTAGQ
Sbjct: 7   LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQ 66
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT----VARMLVGNKC 131
           ERF+++ + +YRGA   L+ + +  R +F+++  W  E   ++D         +++GNK 
Sbjct: 67  ERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKV 126
Query: 132 DLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYS 179
           D E  R V+TEE ++     G + ++ETSA D TNV  AFE  +R++ +
Sbjct: 127 DKED-RQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQVLA 174

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score =  135 bits (339), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 68/170 (40%), Positives = 104/170 (61%), Gaps = 5/170 (2%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           +FKI++IGDS VGK+ L  R+    F   ++ATIGV+F+ ++++IDG+ +K Q+WDTAGQ
Sbjct: 29  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 88
Query: 76  ERFR-AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDL 133
           ERFR ++   YYR     + VYD T   +F S+  W++E K H     + R+LVGNKCDL
Sbjct: 89  ERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 148
Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSAL---DSTNVKSAFEIVIREIYSN 180
            S   V T+  +  A+       ETSA    D+ +V++ F  +  ++ S+
Sbjct: 149 RSAIQVPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKLKSH 198

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  133 bits (335), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 68/156 (43%), Positives = 95/156 (60%), Gaps = 3/156 (1%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++G++AVGKS+++ R+  N+F  + + TIG  F TQ + I+   VK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL---E 134
           F ++   YYR A  AL+VYD+T+  +F     W+ EL   +   +   LVGNK D     
Sbjct: 65  FASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEG 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
             R V+ EEG+ LAE +GL F ETSA    NV   F
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF 160

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  133 bits (335), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 93/156 (59%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y FK+V++G+  VGK++L+ RY  N+FN     T+   F T+ + I GK V   IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERF A+   YYR + GA++VYDIT   +F  +  W+ EL+      +   +VGNK DLE
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
             R+VS +E +S AE+ G     TSA  +  ++  F
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  133 bits (335), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 93/156 (59%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y FK+V++G+  VGK++L+ RY  N+FN     T+   F T+ + I GK V   IWDTAG
Sbjct: 19  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 78
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERF A+   YYR + GA++VYDIT   +F  +  W+ EL+      +   +VGNK DLE
Sbjct: 79  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 138
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
             R+VS +E +S AE+ G     TSA  +  ++  F
Sbjct: 139 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF 174

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  131 bits (330), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 59/155 (38%), Positives = 102/155 (65%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V +G+ AVGK+++++R+  + F+ + ++TIG++F ++++ +D   V+ Q+WDTAGQE
Sbjct: 2   YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQE 61
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT R +F++ ++W+ ++       V   LVGNK DL  +
Sbjct: 62  RFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDL 121
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
           R V+ EEG   A+     F ETSA    N+K  F+
Sbjct: 122 RKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFK 156

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  129 bits (324), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 67/169 (39%), Positives = 111/169 (65%), Gaps = 11/169 (6%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKA-QIWDTAG 74
           + K++I+GDS VGK++L+ RY  ++++   KATIG +F T+ + +DG +V   Q+WDTAG
Sbjct: 8   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNK 130
           QERF+++  A+YRGA   ++VYD+T  ++F++I  W DE   H++     T   +++GNK
Sbjct: 68  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 127
Query: 131 CDLESIRNVSTEE-GKSLAEAEG---LFFMETSALDSTNVKSAFEIVIR 175
            D E  + + +E+  + LA++ G   LF   TSA ++ NV +AFE + R
Sbjct: 128 IDAEESKKIVSEKSAQELAKSLGDIPLFL--TSAKNAINVDTAFEEIAR 174

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  129 bits (323), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 65/182 (35%), Positives = 109/182 (59%), Gaps = 11/182 (6%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID----------GKE 64
           YL K + +GDS VGK+++L +Y   +FN     T+G++F+ + +             G+ 
Sbjct: 10  YLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQR 69
Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           +  Q+WDTAG ERFR++T+A++R A+G L+++D+T   +F ++  W+ +L+ H+ +    
Sbjct: 70  IHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPD 129
Query: 125 M-LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
           + L GNK DLE  R V  EE + LAE  G+ + ETSA + TN+  A E+++  I   + R
Sbjct: 130 IVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMER 189
Query: 184 KV 185
            V
Sbjct: 190 SV 191

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  127 bits (320), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 63/182 (34%), Positives = 110/182 (60%), Gaps = 11/182 (6%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK----------E 64
           YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ + +  + +          +
Sbjct: 24  YLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFK 83
Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           V  Q+WDTAGQERFR++T+A++R A+G L+++D+T + +F ++  W+ +L+ ++      
Sbjct: 84  VHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPD 143
Query: 125 M-LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
           + L+GNK DL   R V+  + + LA+  G+ + ETSA    NV+ A E ++  I   + +
Sbjct: 144 IVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ 203
Query: 184 KV 185
            V
Sbjct: 204 CV 205

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  127 bits (318), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 63/165 (38%), Positives = 106/165 (64%), Gaps = 6/165 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++I+GDS VGK++L+++Y   +F+   KATIG +F T+ + +D + V  QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNKC 131
           ERF+++  A+YRGA   ++V+D+T   TF ++  W DE    +          +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 132 DLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEIVIR 175
           DLE+ R V+T+  ++   ++  + + ETSA ++ NV+ AF+ + R
Sbjct: 128 DLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  126 bits (317), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 63/165 (38%), Positives = 106/165 (64%), Gaps = 6/165 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++I+GDS VGK++L+++Y   +F+   KATIG +F T+ + +D + V  QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNKC 131
           ERF+++  A+YRGA   ++V+D+T   TF ++  W DE    +          +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 132 DLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEIVIR 175
           DLE+ R V+T+  ++   ++  + + ETSA ++ NV+ AF+ + R
Sbjct: 128 DLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  126 bits (317), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 65/182 (35%), Positives = 110/182 (60%), Gaps = 11/182 (6%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID--------GK--E 64
           YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ + +  D        GK  +
Sbjct: 10  YLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFK 69
Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           V  Q+WDTAG ERFR++T+A++R A+G L+++D+T + +F ++  W+ +L+ ++      
Sbjct: 70  VHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPD 129
Query: 125 M-LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
           + L+GNK DL   R V+  + + LAE  G+ + ETSA    NV+ + E ++  I   + +
Sbjct: 130 IVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEK 189
Query: 184 KV 185
            V
Sbjct: 190 CV 191

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  126 bits (317), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 65/182 (35%), Positives = 110/182 (60%), Gaps = 11/182 (6%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID--------GK--E 64
           YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ + +  D        GK  +
Sbjct: 10  YLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFK 69
Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           V  Q+WDTAG ERFR++T+A++R A+G L+++D+T + +F ++  W+ +L+ ++      
Sbjct: 70  VHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPD 129
Query: 125 M-LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
           + L+GNK DL   R V+  + + LAE  G+ + ETSA    NV+ + E ++  I   + +
Sbjct: 130 IVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEK 189
Query: 184 KV 185
            V
Sbjct: 190 CV 191

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 105/165 (63%), Gaps = 6/165 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++I+GDS VGK++L+++Y   +F+   KATIG +F T+ + +D + V  QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNKC 131
           ERF+++  A+YRGA   ++V+D+T   TF ++  W DE    +          +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 132 DLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEIVIR 175
           D E+ R V+T+  ++   ++  + + ETSA ++ NV+ AF+ + R
Sbjct: 128 DFEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  124 bits (310), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 105/165 (63%), Gaps = 6/165 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++I+GDS VGK++L+++Y   +F+   KATIG +F T+ + +D + V  QIWDTAG 
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGL 67
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGNKC 131
           ERF+++  A+YRGA   ++V+D+T   TF ++  W DE    +          +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 132 DLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEIVIR 175
           DLE+ R V+T+  ++   ++  + + ETSA ++ NV+ AF+ + R
Sbjct: 128 DLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  122 bits (307), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 63/171 (36%), Positives = 103/171 (60%), Gaps = 11/171 (6%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID--------GK--E 64
           YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ + +  D        GK  +
Sbjct: 10  YLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFK 69
Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           V  Q+WDTAG ERFR++T+A++R A G L+ +D+T + +F ++  W  +L+ ++      
Sbjct: 70  VHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPD 129
Query: 125 M-LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
           + L+GNK DL   R V+  + + LAE  G+ + ETSA    NV+ + E ++
Sbjct: 130 IVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score =  122 bits (306), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 63/171 (36%), Positives = 103/171 (60%), Gaps = 11/171 (6%)
Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID--------GK--E 64
           YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ + +  D        GK  +
Sbjct: 10  YLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFK 69
Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           V  Q+WDTAG ERFR++T+A++R A G L+ +D+T + +F ++  W  +L+ ++      
Sbjct: 70  VHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPD 129
Query: 125 M-LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
           + L+GNK DL   R V+  + + LAE  G+ + ETSA    NV+ + E ++
Sbjct: 130 IVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  114 bits (285), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 60/156 (38%), Positives = 93/156 (59%), Gaps = 3/156 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+V++G+ AVGKS+++ RY +  F    K TIGV+F  + ++++ ++V+  +WDTAGQE
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLES 135
            F A+T AYYRGA   ++V+  T R +F++IS W +++     D   A  LV NK DL  
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTA--LVQNKIDLLD 123
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
              +  EE + LA+   L F  TS  +  NV   F+
Sbjct: 124 DSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFK 159

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 61/202 (30%), Positives = 101/202 (50%), Gaps = 40/202 (19%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK------------- 63
           +K V++G+S+VGKS+++ R  ++ F+ ++  TIG  F T  + ++               
Sbjct: 8   YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNN 67
Query: 64  ------------------------EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDIT 99
                                    +K  IWDTAGQER+ ++   YYRGA  A++V+DI+
Sbjct: 68  INSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDIS 127
Query: 100 RRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETS 159
              T D    W+++LK  S+  +  +LV NK D    + V   E +  A+   L F++TS
Sbjct: 128 NSNTLDRAKTWVNQLKISSNYII--ILVANKIDKNKFQ-VDILEVQKYAQDNNLLFIQTS 184
Query: 160 ALDSTNVKSAFEIVIREIYSNV 181
           A   TN+K+ F ++  EIY N+
Sbjct: 185 AKTGTNIKNIFYMLAEEIYKNI 206

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score =  101 bits (251), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 61/162 (37%), Positives = 90/162 (55%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 63
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I  + +++K   D+  V  +LVGNKCDL S
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS 123
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V T++ + LA + G+ F+ETSA     V  AF  ++REI
Sbjct: 124 -RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAGQ
Sbjct: 14  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 72
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLE 134
           E + A+   Y+R   G L V+ IT   +F + + + ++ L+   D  V  +LVGNK DLE
Sbjct: 73  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 132
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS EE K+ AE   + ++ETSA    NV   F  ++REI
Sbjct: 133 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 175

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAGQ
Sbjct: 18  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 76
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLE 134
           E + A+   Y+R   G L V+ IT   +F + + + ++ L+   D  V  +LVGNK DLE
Sbjct: 77  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 136
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS EE K+ AE   + ++ETSA    NV   F  ++REI
Sbjct: 137 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 179

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAGQ
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 64
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLE 134
           E + A+   Y+R   G L V+ IT   +F + + + ++ L+   D  V  +LVGNK DLE
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS EE K+ AE   + ++ETSA    NV   F  ++REI
Sbjct: 125 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 99.4 bits (246), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 62
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLE 134
           E + A+   Y+R   G L V+ IT   +F + + + ++ L+   D  V  +LVGNK DLE
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS EE K+ A+   + ++ETSA    NV   F  ++REI
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 97.8 bits (242), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 92/163 (56%), Gaps = 2/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAG 
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 64
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLE 134
           E + A+   Y+R   G L V+ IT   +F + + + ++ L+   D  V  +LVGNK DLE
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS EE K+ AE   + ++ETSA    NV   F  ++REI
Sbjct: 125 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 97.4 bits (241), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 96.7 bits (239), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 90/162 (55%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAG 122
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 96.7 bits (239), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 60/162 (37%), Positives = 89/162 (54%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 63
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I  + +++K   D+  V  +LVGNK DL S
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS 123
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V T++ + LA + G+ F+ETSA     V  AF  ++REI
Sbjct: 124 -RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 95.5 bits (236), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 92/163 (56%), Gaps = 3/163 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI   ++ Q +E+D ++   +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVDAQQCMLEILDTAGTE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
           +F A+   Y +   G  +VY IT ++TF+ +    +++    DT  V  +LVGNKCDLE 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 122
Query: 136 IRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G++LA +     F+E+SA    NV   F  ++R+I
Sbjct: 123 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 95.1 bits (235), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 92/163 (56%), Gaps = 3/163 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI   ++ Q +E+D ++   +I DTAG E
Sbjct: 6   YKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVDAQQCMLEILDTAGTE 64
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
           +F A+   Y +   G  +VY IT ++TF+ +    +++    DT  V  +LVGNKCDLE 
Sbjct: 65  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 124
Query: 136 IRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G++LA +     F+E+SA    NV   F  ++R+I
Sbjct: 125 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 167

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 57/165 (34%), Positives = 93/165 (56%), Gaps = 5/165 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAG 
Sbjct: 7   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 65
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL---KTHSDTTVARMLVGNKCD 132
           E + A+   Y+R   G L+V+ IT   +F + + + +++   K   D  +  ++VGNK D
Sbjct: 66  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDK-IPLLVVGNKSD 124
Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           LE  R V  EE +S AE  G+ ++ETSA    NV   F  ++REI
Sbjct: 125 LEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 169

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 57/165 (34%), Positives = 93/165 (56%), Gaps = 5/165 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAG 
Sbjct: 3   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 61
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL---KTHSDTTVARMLVGNKCD 132
           E + A+   Y+R   G L+V+ IT   +F + + + +++   K   D  +  ++VGNK D
Sbjct: 62  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDK-IPLLVVGNKSD 120
Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           LE  R V  EE +S AE  G+ ++ETSA    NV   F  ++REI
Sbjct: 121 LEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 165

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 94.4 bits (233), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 92/163 (56%), Gaps = 3/163 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI   ++ Q +E+D ++   +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVDCQQCMLEILDTAGTE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLES 135
           +F A+   Y +   G  +VY IT ++TF+ +    +++    DT  V  +LVGNKCDLE 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 136 IRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G++LA +     F+E+SA    NV   F  ++R+I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 94.4 bits (233), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 92/163 (56%), Gaps = 3/163 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI   ++ Q +E+D ++   +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYRKQ-VEVDCQQCMLEILDTAGTE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLES 135
           +F A+   Y +   G  +VY IT ++TF+ +    +++    DT  V  +LVGNKCDLE 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 136 IRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G++LA +     F+E+SA    NV   F  ++R+I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 91.3 bits (225), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 57/165 (34%), Positives = 83/165 (50%), Gaps = 4/165 (2%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK-EVKAQIWDTAGQ 75
            KIV++GD A GK++L + +A+  F    K TIG++F  + + + G   V  QIWD  GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKT---HSDTTVARMLVGNKCD 132
                +   Y  GA G L+VYDIT   +F+++  W   +K     S+T     LVGNK D
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID 126
Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           LE +R +  E+     +  G      SA    +V   F+ V  EI
Sbjct: 127 LEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEI 171

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/164 (31%), Positives = 85/164 (51%), Gaps = 3/164 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     ATIGVE    S   +  E+K  +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE- 123
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +   +    + L + + SA  + N +  F  + R++  N
Sbjct: 124 RKVKAKT-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGN 166

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/164 (31%), Positives = 85/164 (51%), Gaps = 3/164 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     ATIGVE    S   +  E+K  +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE- 122
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           R V  +   +    + L + + SA  + N +  F  + R++  N
Sbjct: 123 RKVKAKT-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGN 165

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 88.2 bits (217), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 52/174 (29%), Positives = 89/174 (51%), Gaps = 3/174 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     ATIGVE    S   +  E+K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE- 130
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDS 190
           R V  +   +    + L + + SA  + N +  F  + R++  N   + + S +
Sbjct: 131 RKVKAKT-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQLEFVASPA 183

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 87.0 bits (214), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 61/174 (35%), Positives = 96/174 (55%), Gaps = 3/174 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSD 189
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI  +  RK+   D
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKLNPPD 175

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 86.7 bits (213), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/161 (33%), Positives = 86/161 (53%), Gaps = 2/161 (1%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+G   VGK++L  ++   EF+     T+   + ++ + +   E    + DTAGQ+ 
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDE 84
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL-KTHSDTTVARMLVGNKCDLESI 136
           +  +  ++  G  G ++VY +T   +F  I     +L + H  T V  +LVGNK DL   
Sbjct: 85  YSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPE 144
Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   EGK LAE+ G  FME+SA ++   +  F  VI+EI
Sbjct: 145 REVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEI 185

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 84/163 (51%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L       +  +L GNK D++  
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 45/155 (29%), Positives = 80/155 (51%), Gaps = 1/155 (0%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG-VEFQTQSMEIDGKEVKAQIWDTAGQ 75
           +KI +IGD  VGK+  ++R     F  +  AT+G V      ++  G  +K  +WDTAGQ
Sbjct: 12  YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQ 71
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           E+   +   YY GA GA++ +D+T R T  +++RW+ E +         ++  NK D+++
Sbjct: 72  EKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKN 131
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
            + +S +    + + +   + E SA  + N    F
Sbjct: 132 RQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPF 166

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 85/163 (52%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 121
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 122 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 161

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 85/163 (52%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 85/163 (52%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 71  KFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 85/163 (52%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 133
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 134 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 173

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 85/163 (52%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 85.5 bits (210), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 95/170 (55%), Gaps = 3/170 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKV 185
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI  +  RK+
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKL 171

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 85.5 bits (210), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 95/170 (55%), Gaps = 3/170 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKV 185
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI  +  RK+
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKL 171

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 85.5 bits (210), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 55/150 (36%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG E + A+   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGHEEYSAMRDQYMRT 92
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I  + +++K   D+  V  +LVGNKCDL S R V T++ + L
Sbjct: 93  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDL 151
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ F+ETSA     V  AF  ++REI
Sbjct: 152 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 181

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 85.1 bits (209), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 83/163 (50%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF      T+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L       +  +L GNK D++  
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 85.1 bits (209), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 84/163 (51%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I +D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 71  KFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 55/150 (36%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 92
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F  I+ + +++K   D+  V  +LVGNKCDL + R V T++   L
Sbjct: 93  GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHEL 151
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A++ G+ F+ETSA     V+ AF  ++REI
Sbjct: 152 AKSYGIPFIETSAKTRQGVEDAFYTLVREI 181

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 84.3 bits (207), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 85/163 (52%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           ++  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 71  KYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 84/163 (51%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF      T+GVE        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 11  KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 69
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 70  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 128
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 129 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 180

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 10  KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 68
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 127
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 179

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 67
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 126
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 178

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 176

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 8   KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 66
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 125
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 177

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 67
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 126
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 178

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 84.0 bits (206), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 8   KLVIVGDVACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 66
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 125
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 177

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 84.0 bits (206), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 67
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 126
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 178

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 83.6 bits (205), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEESYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 83.6 bits (205), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 138
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 83.6 bits (205), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 138
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 83.6 bits (205), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 83/163 (50%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAG E
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L       +  +L GNK D++  
Sbjct: 67  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIKD- 124
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 125 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 164

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 83.6 bits (205), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 83.6 bits (205), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 83.2 bits (204), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 83.2 bits (204), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 81
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 82  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 140
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 141 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 170

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 83.2 bits (204), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 83/163 (50%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 72
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L       +  +L GNK D++  
Sbjct: 73  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIKD- 130
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 131 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 170

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 83.2 bits (204), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDEYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDKYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 52/148 (35%), Positives = 83/148 (56%), Gaps = 7/148 (4%)
Query: 31  NLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV 90
            L+  +  +EF+P    TI   ++ Q + IDG+     I DTAGQE + A+   Y R   
Sbjct: 22  QLIQNHFVDEFDP----TIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRTGE 76
Query: 91  GALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSLAE 149
           G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + LA 
Sbjct: 77  GFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLAR 135
Query: 150 AEGLFFMETSALDSTNVKSAFEIVIREI 177
           + G+ ++ETSA     V+ AF  ++REI
Sbjct: 136 SYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGEICLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 84/163 (51%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAG E
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 70
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 128
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 129 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 89/172 (51%), Gaps = 14/172 (8%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
             K V +GD AVGK+ +L  Y  N F      T+   F + ++ +DG  V   +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQ 64
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLE 134
           E +  +    YRGA   L+ + +  + ++++I  +WL ELK H    +  +LVG K DL 
Sbjct: 65  EDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELK-HYAPGIPIVLVGTKLDLR 123
Query: 135 SIR----------NVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIR 175
             +          +++T +G+ L +  G + ++E S+    NVK+ F+  IR
Sbjct: 124 DDKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVFDTAIR 175

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 55/150 (36%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I  + +++K   D+  V  +LVGNK DL S R V T++ + L
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDL 134
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ F+ETSA     V  AF  ++REI
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 55/150 (36%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I  + +++K   D+  V  +LVGNK DL S R V T++ + L
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDL 134
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ F+ETSA     V  AF  ++REI
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 122
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 174

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGN+CDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      +I   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 80
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 81  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 139
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 140 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 169

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           K+ L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 176

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 176

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 122
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 174

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 176

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      +I   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 89/168 (52%), Gaps = 6/168 (3%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            KIV++GD AVGK+ LL  +++ E  P +      E  +  M+   +E    +WDTAGQE
Sbjct: 24  LKIVVVGDGAVGKTCLLLAFSKGEI-PTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQE 82
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y  +   L+ + +  RT+FD+IS +W  E+K + DT    +LVG K DL  
Sbjct: 83  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTA-KTVLVGLKVDLRK 141
Query: 134 ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYSN 180
           +   +V+ +EG  L +  G   ++E S++    +   FE  +  I+SN
Sbjct: 142 DGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN 189

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DT GQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTGGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 89/168 (52%), Gaps = 6/168 (3%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            KIV++GD AVGK+ LL  +++ E  P +      E  +  M+   +E    +WDTAGQE
Sbjct: 23  LKIVVVGDGAVGKTCLLLAFSKGEI-PTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQE 81
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y  +   L+ + +  RT+FD+IS +W  E+K + DT    +LVG K DL  
Sbjct: 82  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTA-KTVLVGLKVDLRK 140
Query: 134 ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYSN 180
           +   +V+ +EG  L +  G   ++E S++    +   FE  +  I+SN
Sbjct: 141 DGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN 188

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 82.0 bits (201), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 84/163 (51%), Gaps = 7/163 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   E      AT+GVE        +   +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L GNK D++  
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD- 133
Query: 137 RNVSTEEGKSLA--EAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R V   + KS+     + L + + SA  + N +  F  + R++
Sbjct: 134 RKV---KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 173

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DT GQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTTGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG+E + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGKEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG E + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGHEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 57/161 (35%), Positives = 90/161 (55%), Gaps = 3/161 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
            R V + + + LA + G+ ++ETSA     V+ AF  ++RE
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 56/176 (31%), Positives = 85/176 (48%), Gaps = 18/176 (10%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
             K V +GD AVGK+ LL  Y  N F      T+   F + ++ ++G  V   +WDTAGQ
Sbjct: 8   FIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQ 66
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLE 134
           E +  +    YRGA   ++ + +  + +++++S +W+ ELK H    V  +LVG K DL 
Sbjct: 67  EDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELK-HYAPGVPIVLVGTKLDLR 125
Query: 135 -------------SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
                         I  V  EE K L  A    ++E S+    NVK  F+  IR +
Sbjct: 126 DDKQFFIDHPGAVPITTVQGEELKKLIGAPA--YIECSSKSQENVKGVFDAAIRVV 179

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y     +LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G + ++E SAL    +K+ F+  IR +     
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 181
Query: 183 RK 184
            K
Sbjct: 182 VK 183

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE   A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEASAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 87/182 (47%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 64
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y     +LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 123
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +     
Sbjct: 124 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 183
Query: 183 RK 184
            K
Sbjct: 184 VK 185

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 87/182 (47%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y     +LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +     
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 181
Query: 183 RK 184
            K
Sbjct: 182 VK 183

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 87/182 (47%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y     +LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 67  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 125
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +     
Sbjct: 126 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 185
Query: 183 RK 184
            K
Sbjct: 186 VK 187

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 86/163 (52%), Gaps = 8/163 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI I+G  +VGKS+L  ++   +F   +  TI   F T+ + ++G+E   Q+ DTAGQ+ 
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 64
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI----SRWLDELKTHSDTTVARMLVGNKCDL 133
           +      Y     G ++VY +T   +F+ I     + LD +       +  MLVGNK DL
Sbjct: 65  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMV---GKVQIPIMLVGNKKDL 121
Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
              R +S EEGK+LAE+    F+E+SA ++      F  +I E
Sbjct: 122 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 164

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 80.9 bits (198), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 85/164 (51%), Gaps = 8/164 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+ I G + VGKS L+ R+    F      T+   ++ Q+  ID + V  +I DTAGQE 
Sbjct: 30  KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT-IDDEVVSMEILDTAGQED 88
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI---SRWLDELKTHSDTTVARMLVGNKCDLE 134
                  + R   G ++VYDIT R +F+ +      LDE+K   + T+  +LVGNK DL+
Sbjct: 89  -TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTL--ILVGNKADLD 145
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEIVIREI 177
             R VSTEEG+ LA      F E SA     N+   F  + RE+
Sbjct: 146 HSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREV 189

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 80.5 bits (197), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 51/168 (30%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD   GK++LL  +A   F P S      E    ++++ GK V   IWDTAGQ+ 
Sbjct: 36  KVVLVGDGGCGKTSLLMVFADGAF-PESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDD 94
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +   +Y  A   L+ +D+T   +FD+I +RW  E+  H    V  ++VG K DL   
Sbjct: 95  YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV-NHFCKKVPIIVVGCKTDLRKD 153
Query: 134 ---------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFE 171
                      +  V+   G+ +A + G + ++E SA    NV + F+
Sbjct: 154 KSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQ 201

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 80.5 bits (197), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG E + A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGLEEYSAMRDQYMRT 79
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 138
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 80.5 bits (197), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 55/172 (31%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 7   KLVIVGDVACGKTCLLIVFSKDQF-PAVYVPTVFENYVADIEVDGKQVELALWDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI 136
           +       Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL + 
Sbjct: 66  YDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 124
Query: 137 RNVSTE------------EGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
            + + E            EG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 125 EHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 176

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 80.5 bits (197), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG E + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGGEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 80.5 bits (197), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 90/162 (55%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGLE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 80.1 bits (196), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 52/177 (29%), Positives = 86/177 (48%), Gaps = 16/177 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYS 179
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR + S
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLS 178

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG E + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGVEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 80.1 bits (196), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 85/163 (52%), Gaps = 8/163 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI I+G  +VGKS+L  ++   +F      TI   F T+ + ++G+E   Q+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI----SRWLDELKTHSDTTVARMLVGNKCDL 133
           +      Y     G ++VY +T   +F+ I     + LD +       +  MLVGNK DL
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMV---GKVQIPIMLVGNKKDL 123
Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
              R +S EEGK+LAE+    F+E+SA ++      F  +I E
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 166

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG E + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGIEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAG E + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETXLLDILDTAGGEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCDL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 85/163 (52%), Gaps = 8/163 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI I+G  +VGKS+L  ++   +F      TI   F T+ + ++G+E   Q+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI----SRWLDELKTHSDTTVARMLVGNKCDL 133
           +      Y     G ++VY +T   +F+ I     + LD +       +  MLVGNK DL
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMV---GKVQIPIMLVGNKKDL 123
Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
              R +S EEGK+LAE+    F+E+SA ++      F  +I E
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 166

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 50/174 (28%), Positives = 89/174 (51%), Gaps = 14/174 (8%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
             K V +GD AVGK+ +L  Y  N F      T+   F + ++ +DG  V   +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLWDTAGQ 64
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLE 134
           E +  +    YRGA   ++ + +  + ++++++ +W+ EL+ H    V  +LVG K DL 
Sbjct: 65  EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR-HYAPGVPIILVGTKLDLR 123
Query: 135 SIRN----------VSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
             +           ++T +G+ L +  G   ++E S+    NVK+ F+  I+ +
Sbjct: 124 DDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVFDAAIKVV 177

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 56/172 (32%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYIADIEVDGKQVELALWDTAGQED 85
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFXPNVPIILVGNKKDLRQD 144
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V +EEG+ +A     F ++E SA     V+  FE+  R
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATR 196

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 87/182 (47%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G + ++E SAL    +K+ F+  IR +     
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 181
Query: 183 RK 184
            K
Sbjct: 182 VK 183

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 86/182 (47%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +     
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 181
Query: 183 RK 184
            K
Sbjct: 182 VK 183

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 53/175 (30%), Positives = 87/175 (49%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHT-PILLVGTKLDLRD 121
Query: 134 -----ESIRN-----VSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
                E +R+     ++  +G ++A   G + ++E SAL    +K+ F+  IR +
Sbjct: 122 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAV 176

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 87/160 (54%), Gaps = 6/160 (3%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYA-RNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           L+++V++GD  VGK++L S +A + E + H +  +G +   +++ +DG++    + DT  
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLHEQ--LGEDVYERTLTVDGEDTTLVVVDTWE 61
Query: 75  QERFRAVTS--AYYRGAVGALIVYDITRRTTFDSISRWLDELK-THSDTTVARMLVGNKC 131
            E+     S  +  +G    +IVY I  R +F+S S    +L+ TH    V  +LVGNK 
Sbjct: 62  AEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKA 121
Query: 132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
           DL   R VS EEG++ A      F+ETSA    NV   FE
Sbjct: 122 DLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFE 161

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE + A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYRKQVV-IDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L V+ I    +F+ I ++ +++K   D+  V  +LVGNK DL + R V + + + L
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL-AARTVESRQAQDL 133
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A + G+ ++ETSA     V+ AF  ++REI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 53/175 (30%), Positives = 87/175 (49%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 63
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHT-PILLVGTKLDLRD 122
Query: 134 -----ESIRN-----VSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
                E +R+     ++  +G ++A   G + ++E SAL    +K+ F+  IR +
Sbjct: 123 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAV 177

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 53/175 (30%), Positives = 87/175 (49%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 63
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHT-PILLVGTKLDLRD 122
Query: 134 -----ESIRN-----VSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
                E +R+     ++  +G ++A   G + ++E SAL    +K+ F+  IR +
Sbjct: 123 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAV 177

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 51/174 (29%), Positives = 86/174 (49%), Gaps = 16/174 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N F+     T+   +    M +DGK V   +WDTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 73
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL   
Sbjct: 74  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRDD 132
Query: 134 ---------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                    + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 133 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 186

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 85/163 (52%), Gaps = 8/163 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KI I+G  +VGKS+L  ++   +F      TI   F T+ + ++G+E   Q+ DTAGQ+ 
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 61
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI----SRWLDELKTHSDTTVARMLVGNKCDL 133
           +      Y     G ++VY +T   +F+ I     + LD +       +  MLVGNK DL
Sbjct: 62  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMV---GKVQIPIMLVGNKKDL 118
Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
              R +S EEGK+LAE+    F+E+SA ++      F  +I E
Sbjct: 119 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 161

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 78/150 (52%), Gaps = 2/150 (1%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  ++ ++ F      TI   +  Q + ID +  +  I DTAGQE F A+   Y R 
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSYTKQCV-IDDRAARLDILDTAGQEEFGAMREQYMRT 76
Query: 89  AVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSL 147
             G L+V+ +T R +F+ I ++  + L+         +L+GNK DL+  R V+ EEG+ L
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQL 136
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           A    + +ME SA    NV  AF  ++R I
Sbjct: 137 ARQLKVTYMEASAKIRMNVDQAFHELVRVI 166

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 85/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 23  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 81
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 82  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 140
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 141 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 195

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 56/172 (32%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL  +++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENYIADIEVDGKQVELALWDTAGQED 85
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRQD 144
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V +EEG+ +A     F ++E SA     V+  FE+  R
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATR 196

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 85/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 176

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 85/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 176

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 56/170 (32%), Positives = 88/170 (51%), Gaps = 17/170 (10%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GDS  GK+ LL  +A++ F P +      E  T S EID + ++  +WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCF-PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 67
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES- 135
           +  V    Y  +   LI +DI+R  T DS+  +W  E++     T   +LVG K DL + 
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT-KMLLVGCKSDLRTD 126
Query: 136 ------IRN-----VSTEEGKSLAEAEGLF-FMETSALDSTN-VKSAFEI 172
                 + N     VS ++G ++A+  G   ++E SAL S N V+  F +
Sbjct: 127 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHV 176

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 56/170 (32%), Positives = 88/170 (51%), Gaps = 17/170 (10%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GDS  GK+ LL  +A++ F P +      E  T S EID + ++  +WDT+G   
Sbjct: 25  KIVVVGDSQCGKTALLHVFAKDCF-PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 83
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES- 135
           +  V    Y  +   LI +DI+R  T DS+  +W  E++     T   +LVG K DL + 
Sbjct: 84  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT-KMLLVGCKSDLRTD 142
Query: 136 ------IRN-----VSTEEGKSLAEAEGLF-FMETSALDSTN-VKSAFEI 172
                 + N     VS ++G ++A+  G   ++E SAL S N V+  F +
Sbjct: 143 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHV 192

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 85/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 176

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 85/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 69
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 128
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 129 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 183

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 56/170 (32%), Positives = 88/170 (51%), Gaps = 17/170 (10%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GDS  GK+ LL  +A++ F P +      E  T S EID + ++  +WDT+G   
Sbjct: 30  KIVVVGDSQCGKTALLHVFAKDCF-PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 88
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES- 135
           +  V    Y  +   LI +DI+R  T DS+  +W  E++     T   +LVG K DL + 
Sbjct: 89  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT-KMLLVGCKSDLRTD 147
Query: 136 ------IRN-----VSTEEGKSLAEAEGLF-FMETSALDSTN-VKSAFEI 172
                 + N     VS ++G ++A+  G   ++E SAL S N V+  F +
Sbjct: 148 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHV 197

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 57/172 (33%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++++F P        E     +E+DGK+V+  +WDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGLED 68
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRND 127
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V  EEG+ +A   G F +ME SA     V+  FE+  R
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 179

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/175 (29%), Positives = 85/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 89
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 148
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 203

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 52/172 (30%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD A GK+ LL  ++++EF P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEF-PEVYVPTVFENYVADIEVDGKQVELALWDTAGQED 85
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI 136
           +  +    Y      L+ + +    + ++I  +W+ E+K H    V  +LV NK DL S 
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVK-HFCPNVPIILVANKKDLRSD 144
Query: 137 RNVSTE------------EGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIR 175
            +V TE            +G+++A   +   ++E SA     V+  FE   R
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATR 196

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/175 (28%), Positives = 86/175 (49%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +D K V   +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +++++ ++W  E++ H  +T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPST-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G +LA E + + ++E SAL    +K+ F+  IR +
Sbjct: 122 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAV 176

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  ++ +  F P    TI   +   + EID +     + DTAGQE F A+   Y R 
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYLKHT-EIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 89  AVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSL 147
             G LIVY +T + +F+ + R+    L+     +   +LV NK DL  +R V+ ++GK +
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 148 AEAEGLFFMETSALDST-NVKSAFEIVIREI 177
           A    + ++ETSA D   NV   F  ++R I
Sbjct: 150 ATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 77.8 bits (190), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  ++ +  F P    TI   +   + EID +     + DTAGQE F A+   Y R 
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYLKHT-EIDNQWAILDVLDTAGQEEFSAMREQYMRT 84
Query: 89  AVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSL 147
             G LIVY +T + +F+ + R+    L+     +   +LV NK DL  +R V+ ++GK +
Sbjct: 85  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 144
Query: 148 AEAEGLFFMETSALDST-NVKSAFEIVIREI 177
           A    + ++ETSA D   NV   F  ++R I
Sbjct: 145 ATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 175

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 50/175 (28%), Positives = 86/175 (49%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +D K V   +WDTAGQE
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 68
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +++++ ++W  E++ H  +T   +LVG K DL  
Sbjct: 69  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPST-PIILVGTKLDLRD 127
Query: 134 ----------ESIRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G +LA E + + ++E SAL    +K+ F+  IR +
Sbjct: 128 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAV 182

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 77.4 bits (189), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 56/172 (32%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++++F P        E     +E+DGK+V+  +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYIADIEVDGKQVELALWDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + I    + ++I  +W  E+K H    V  +LVGNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRQD 124
Query: 134 ESIR---------NVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
           E  R          V +EEG+ +A     F ++E SA     V+  FE+  R
Sbjct: 125 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATR 176

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 77.4 bits (189), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 50/175 (28%), Positives = 86/175 (49%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +D K V   +WDTAGQE
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQE 69
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +++++ ++W  E++ H  +T   +LVG K DL  
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPST-PIILVGTKLDLRD 128
Query: 134 ----------ESIRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G +LA E + + ++E SAL    +K+ F+  IR +
Sbjct: 129 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAV 183

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 50/179 (27%), Positives = 92/179 (51%), Gaps = 12/179 (6%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
             K V +GD AVGK+ +L  Y  N+F      T+   F + ++ +DG+ V   +WDTAGQ
Sbjct: 9   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQ 67
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLE 134
           E +  +    YRGA   ++ + +  + +++++  +W+ EL+  +   V  +LVG K DL 
Sbjct: 68  EDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLR 126
Query: 135 SIRN--------VSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
             +         +++ +G+ L +  G   ++E S+    NVK+ F+  I+ +     RK
Sbjct: 127 DDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPRRK 185

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 51/182 (28%), Positives = 85/182 (46%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +     
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 181
Query: 183 RK 184
            K
Sbjct: 182 VK 183

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 51/182 (28%), Positives = 86/182 (47%), Gaps = 16/182 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 121
Query: 134 ----------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSNVS 182
                     + +  ++  +G ++A+  G + ++E SAL    +K+ F+  IR +     
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 181
Query: 183 RK 184
            K
Sbjct: 182 VK 183

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 50/175 (28%), Positives = 84/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N        T+   +    M +DGK V   +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 89
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 148
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 203

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/175 (28%), Positives = 84/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAG E
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 66  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 124
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 125 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 179

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/175 (28%), Positives = 84/175 (48%), Gaps = 16/175 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAG E
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLE 89
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H   T   +LVG K DL  
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNT-PIILVGTKLDLRD 148
Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR +
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 203

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 56/162 (34%), Positives = 89/162 (54%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTA QE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAAQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNK DL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 56/162 (34%), Positives = 89/162 (54%), Gaps = 3/162 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTA QE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAAQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNK DL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-A 121
Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/121 (35%), Positives = 62/121 (51%), Gaps = 5/121 (4%)
Query: 60  IDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL---KT 116
           +DG   +  I DTAGQE F A+   Y R   G L+V+ I  R +F+ + +   ++   K 
Sbjct: 52  VDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKD 111
Query: 117 HSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
             D  V  +LVGNK DLES R V   E  +   +  + + E SA    NV  AFE ++R 
Sbjct: 112 RDDFPV--VLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRA 169
Query: 177 I 177
           +
Sbjct: 170 V 170

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/176 (28%), Positives = 84/176 (47%), Gaps = 16/176 (9%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 213
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL- 133
           E +  +    Y      LI + +    +F  + ++W  E++ H   T   +LVG K DL 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI-ILVGTKLDLR 272
Query: 134 -----------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
                      + +  ++  +G ++A+  G + ++E SAL    +K+ F+  IR +
Sbjct: 273 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 328

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 53/194 (27%), Positives = 87/194 (44%), Gaps = 35/194 (18%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQE 64
Query: 77  RFRAVTSAYYRGAVGA-------------------LIVYDITRRTTFDSI-SRWLDELKT 116
            +  +    Y   VG                    LI + +    +F+++ ++W  E++ 
Sbjct: 65  DYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRH 124
Query: 117 HSDTTVARMLVGNKCDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDS 163
           H   T   +LVG K DL            + +  ++  +G ++A+  G   ++E SAL  
Sbjct: 125 HCPNT-PIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ 183
Query: 164 TNVKSAFEIVIREI 177
             +K+ F+  IR +
Sbjct: 184 RGLKTVFDEAIRAV 197

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/176 (28%), Positives = 84/176 (47%), Gaps = 16/176 (9%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 213
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL- 133
           E +  +    Y      LI + +    +F  + ++W  E++ H   T   +LVG K DL 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI-ILVGTKLDLR 272
Query: 134 -----------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
                      + +  ++  +G ++A+  G + ++E SAL    +K+ F+  IR +
Sbjct: 273 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 328

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/176 (28%), Positives = 84/176 (47%), Gaps = 16/176 (9%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K V++GD AVGK+ LL  Y  N F      T+   +    M +DGK V   +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 213
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL- 133
           E +  +    Y      LI + +    +F  + ++W  E++ H   T   +LVG K DL 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI-ILVGTKLDLR 272
Query: 134 -----------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
                      + +  ++  +G ++A+  G + ++E SAL    +K+ F+  IR +
Sbjct: 273 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 328

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 43/121 (35%), Positives = 65/121 (53%), Gaps = 2/121 (1%)
Query: 59  EIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTH 117
           EID +     + DTAGQE F A+   Y R   G LIVY +T + +F+ + R+    L+  
Sbjct: 60  EIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVK 119
Query: 118 SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEIVIRE 176
              +   +LV NK DL  +R V+ ++GK +A    + ++ETSA D   NV   F  ++R 
Sbjct: 120 DRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRV 179
Query: 177 I 177
           I
Sbjct: 180 I 180

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 43/121 (35%), Positives = 65/121 (53%), Gaps = 2/121 (1%)
Query: 59  EIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTH 117
           EID +     + DTAGQE F A+   Y R   G LIVY +T + +F+ + R+    L+  
Sbjct: 60  EIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVK 119
Query: 118 SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEIVIRE 176
              +   +LV NK DL  +R V+ ++GK +A    + ++ETSA D   NV   F  ++R 
Sbjct: 120 DRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRV 179
Query: 177 I 177
           I
Sbjct: 180 I 180

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 72.8 bits (177), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/163 (31%), Positives = 86/163 (52%), Gaps = 3/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           ++K++++G   VGKS L   +   E  P ++A  G  +  +S+ +DG+E    ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAA-GHTYD-RSIVVDGEEASLMVYDIWEQ 64
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLE 134
           +  R +           +IVY +T + +F+  S    +L+    T  V  +LVGNK DL 
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS +EG++ A      F+ETSA    NV++ FE V+R+I
Sbjct: 125 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/163 (31%), Positives = 86/163 (52%), Gaps = 3/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           ++K++++G   VGKS L   +   E  P ++A  G  +  +S+ +DG+E    ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAA-GHTYD-RSIVVDGEEASLMVYDIWEQ 64
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLE 134
           +  R +           +IVY +T + +F+  S    +L+    T  V  +LVGNK DL 
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 124
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS +EG++ A      F+ETSA    NV++ FE V+R+I
Sbjct: 125 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/163 (31%), Positives = 86/163 (52%), Gaps = 3/163 (1%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           ++K++++G   VGKS L   +   E  P ++A  G  +  +S+ +DG+E    ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAA-GHTYD-RSIVVDGEEASLMVYDIWEQ 59
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLE 134
           +  R +           +IVY +T + +F+  S    +L+    T  V  +LVGNK DL 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS +EG++ A      F+ETSA    NV++ FE V+R+I
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 84/171 (49%), Gaps = 16/171 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK++L+  Y  N + P        +  +  + +DG+ V+ Q+ DTAGQ+ 
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGY-PTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDE 80
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-ES 135
           F  +    Y      L+ + +   ++F ++S +W+ E++ H       +LVG + DL E 
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLRED 139
Query: 136 I-----------RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
           +           + V  E  K LA E +   ++E SAL   N+K  F+  I
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAI 190

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 77/157 (49%), Gaps = 3/157 (1%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++ + G   VGKS+L+ R+ +  F      T+   ++ Q +  D      QI DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSH 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL-KTHSDT-TVARMLVGNKCDLE 134
           +F A+           ++VY IT R + + +    +++ +   D  ++  MLVGNKCD  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122
Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
             R V + E ++LA      FMETSA  + NVK  F+
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQ 159

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 52/172 (30%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+VI+GD A GK+ LL   ++ +F P        E     +E+DG+ V+  +WDTAGQE 
Sbjct: 12  KLVIVGDGACGKTCLLIVNSKGQF-PEVYVPTVFENYVADVEVDGRRVELALWDTAGQED 70
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y  +   LI + I    + +++  +W+ E+  H    V  +LVG K DL   
Sbjct: 71  YDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEV-LHFCQGVPIILVGCKVDLRND 129
Query: 134 ---------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
                    E  + V+++EG+S+A+  G   + E SA     V+  FE   R
Sbjct: 130 PQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVFEAATR 181

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 49/178 (27%), Positives = 84/178 (47%), Gaps = 16/178 (8%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           + K V++GD AVGK+ LL  YA + F P        +    S+ + GK+    ++DTAGQ
Sbjct: 18  MLKCVVVGDGAVGKTCLLMSYANDAF-PEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQ 76
Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLE 134
           E +  +    Y      LI + +    +F ++   W+ ELK ++   V  +L+G + DL 
Sbjct: 77  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLR 135
Query: 135 SI------------RNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYS 179
                         + +  E+G+ LA+  G   ++E SAL    +K+ F+  I  I +
Sbjct: 136 DDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAILT 193

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 70.5 bits (171), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 79/150 (52%), Gaps = 2/150 (1%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS L  ++    F      TI  +F  + +E+D      +I DTAG E+F ++   Y + 
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 89  AVGALIVYDITRRTTFDSISRWLDEL-KTHSDTTVARMLVGNKCDLESIRNVSTEEGKSL 147
             G ++VY +  + +F  I    D++ +      V  +LVGNK DLES R VS+ EG++L
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRAL 134
Query: 148 AEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           AE  G  FMETSA   T V   F  ++R++
Sbjct: 135 AEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 53/171 (30%), Positives = 86/171 (50%), Gaps = 17/171 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKA-TIGVEFQTQSMEIDGKE---VKAQIWDT 72
           +++V+IG+  VGKS L + +A    +  S    +G +   +++ +DG+    +   +W+ 
Sbjct: 38  YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWEN 97
Query: 73  AGQERF-----RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARML 126
            G+  +       V  AY       LIVY IT R +F+  S    +L+    T  +  +L
Sbjct: 98  KGENEWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 150
Query: 127 VGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           VGNK DL   R VS  EG++ A      F+ETSA    NVK  FE ++R++
Sbjct: 151 VGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 201

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/171 (30%), Positives = 86/171 (50%), Gaps = 17/171 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKA-TIGVEFQTQSMEIDGKE---VKAQIWDT 72
           +++V+IG+  VGKS L + +A    +  S    +G +   +++ +DG+    +   +W+ 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 73  AGQERF-----RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARML 126
            G+  +       V  AY       LIVY IT R +F+  S    +L+    T  +  +L
Sbjct: 67  KGENEWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119
Query: 127 VGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           VGNK DL   R VS  EG++ A      F+ETSA    NVK  FE ++R++
Sbjct: 120 VGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 86/171 (50%), Gaps = 17/171 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYAR-NEFNPHSKATIGVEFQTQSMEIDGKE---VKAQIWDT 72
           +++V+IG+  VGKS L + +A  ++        +G +   +++ +DG+    +   +W+ 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 73  AGQERF-----RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARML 126
            G+  +       V  AY       LIVY IT R +F+  S    +L+    T  +  +L
Sbjct: 67  KGENEWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119
Query: 127 VGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           VGNK DL   R VS  EG++ A      F+ETSA    NVK  FE ++R++
Sbjct: 120 VGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 86/171 (50%), Gaps = 17/171 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYAR-NEFNPHSKATIGVEFQTQSMEIDGKE---VKAQIWDT 72
           +++V+IG+  VGKS L + +A  ++        +G +   +++ +DG+    +   +W+ 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWEN 66
Query: 73  AGQERF-----RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARML 126
            G+  +       V  AY       LIVY IT R +F+  S    +L+    T  +  +L
Sbjct: 67  KGENEWLHDHXMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119
Query: 127 VGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           VGNK DL   R VS  EG++ A      F+ETSA    NVK  FE ++R++
Sbjct: 120 VGNKSDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 50/187 (26%), Positives = 86/187 (45%), Gaps = 23/187 (12%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD   GK+ +L   A++ + P +      E  T  +E + + V+  +WDT+G   
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCY-PETYVPTVFENYTACLETEEQRVELSLWDTSGSPY 71
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDS-ISRWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  V    Y  +   L+ +DI+R  T DS + +W  E+  +  +T   +L+G K DL   
Sbjct: 72  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV-LLIGCKTDLRTD 130
Query: 134 ---------ESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIREIYSNVSR 183
                    +    +S E+G ++A+  G   ++E SA  S       E  I  I+   S 
Sbjct: 131 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTS-------EKSIHSIFRTASM 183
Query: 184 KVLNSDS 190
             LN  S
Sbjct: 184 LCLNKPS 190

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 50/187 (26%), Positives = 86/187 (45%), Gaps = 23/187 (12%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD   GK+ +L   A++ + P +      E  T  +E + + V+  +WDT+G   
Sbjct: 29  KLVLVGDVQCGKTAMLQVLAKDCY-PETYVPTVFENYTACLETEEQRVELSLWDTSGSPY 87
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDS-ISRWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  V    Y  +   L+ +DI+R  T DS + +W  E+  +  +T   +L+G K DL   
Sbjct: 88  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV-LLIGCKTDLRTD 146
Query: 134 ---------ESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIREIYSNVSR 183
                    +    +S E+G ++A+  G   ++E SA  S       E  I  I+   S 
Sbjct: 147 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTS-------EKSIHSIFRTASM 199
Query: 184 KVLNSDS 190
             LN  S
Sbjct: 200 LCLNKPS 206

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 63.9 bits (154), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 50/187 (26%), Positives = 86/187 (45%), Gaps = 23/187 (12%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++GD   GK+ +L   A++ + P +      E  T  +E + + V+  +WDT+G   
Sbjct: 12  KLVLVGDVQCGKTAMLQVLAKDCY-PETYVPTVFENYTACLETEEQRVELSLWDTSGSPY 70
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDS-ISRWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  V    Y  +   L+ +DI+R  T DS + +W  E+  +  +T   +L+G K DL   
Sbjct: 71  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV-LLIGCKTDLRTD 129
Query: 134 ---------ESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIREIYSNVSR 183
                    +    +S E+G ++A+  G   ++E SA  S       E  I  I+   S 
Sbjct: 130 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTS-------EKSIHSIFRTASM 182
Query: 184 KVLNSDS 190
             LN  S
Sbjct: 183 LCLNKPS 189

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 16/171 (9%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKA---QIW-- 70
           +FK++++G+S VGKS L   +   + +   +     +   + + +D +EV      IW  
Sbjct: 23  IFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQ 82
Query: 71  -DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK---THSDTTVARML 126
            D  G  R   + +         LIV+ +T R +F  +   L  L+    H D  V  +L
Sbjct: 83  GDAGGWLRDHCLQTGD-----AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPV--IL 135
Query: 127 VGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           VGNK DL   R VS EEG+ LA       +ETSA    N +  FE  +R+I
Sbjct: 136 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 186

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 63.5 bits (153), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 82/169 (48%), Gaps = 16/169 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 63.5 bits (153), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 82/169 (48%), Gaps = 16/169 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 63
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 64  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 122
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 123 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 171

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 63.5 bits (153), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 46/171 (26%), Positives = 83/171 (48%), Gaps = 16/171 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 124
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 125 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 175

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 63.5 bits (153), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 83/172 (48%), Gaps = 16/172 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 65
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 124
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 125 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 176

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 63.5 bits (153), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 83/172 (48%), Gaps = 16/172 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 65
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 124
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 125 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 172

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/177 (27%), Positives = 84/177 (47%), Gaps = 9/177 (5%)
Query: 18  KIVIIGDSAVGKSNLLSRYAR--NEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW--DTA 73
           K+ ++G++ VGKS L+S +    ++F      T GVE     + I    V  +++  DTA
Sbjct: 22  KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTA 81
Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKT---HSDTTVARMLVGNK 130
           G + ++   S Y+ G   A++V+D++   +F+S   W + LK+     +  +  +LV NK
Sbjct: 82  GSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANK 141
Query: 131 CDLESIRN-VSTEEGKSLAEAEGLFFMETSA-LDSTNVKSAFEIVIREIYSNVSRKV 185
            DL   R+ V  +  +  A    L F + SA     +  + F  +    Y N   KV
Sbjct: 142 TDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDKV 198

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/171 (26%), Positives = 83/171 (48%), Gaps = 16/171 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 67
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 68  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 126
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 127 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 174

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/171 (26%), Positives = 83/171 (48%), Gaps = 16/171 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 73
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 74  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 132
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 133 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 183

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 82/169 (48%), Gaps = 16/169 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE
Sbjct: 4   IKCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/171 (26%), Positives = 83/171 (48%), Gaps = 16/171 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 66
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 67  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 125
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 126 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 176

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 83/172 (48%), Gaps = 16/172 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 69
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 128
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 129 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 180

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFD 170

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFD 170

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 56/174 (32%), Positives = 82/174 (47%), Gaps = 22/174 (12%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGKEVKA---QIW- 70
           +FK++++G+S VGKS L   +   +  N H        ++ + M +D +EV      IW 
Sbjct: 12  VFKVMLLGESGVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIM-VDKEEVTLIVYDIWE 70
Query: 71  --DTAG--QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK---THSDTTVA 123
             D  G  Q+       A+       LIV+ +T R +F  +   L  L+    H D  V 
Sbjct: 71  QGDAGGWLQDHCLQTGDAF-------LIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPV- 122
Query: 124 RMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            +LVGNK DL   R VS EEG+ LA       +ETSA    N +  FE  +R+I
Sbjct: 123 -ILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 175

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 62.8 bits (151), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 16/172 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 69
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 128
Query: 134 ----------ESIRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
                        + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 129 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 180

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 53/173 (30%), Positives = 81/173 (46%), Gaps = 20/173 (11%)
Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKA---QIW-- 70
           +FK++++G+S VGKS L   +   + +   +     +   + + +D +EV      IW  
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61
Query: 71  -DTAG--QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK---THSDTTVAR 124
            D  G  Q+       A+       LIV+ +T R +F  +   L  L+    H D  V  
Sbjct: 62  GDAGGWLQDHCLQTGDAF-------LIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPV-- 112
Query: 125 MLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           +LVGNK DL   R VS EEG+ LA       +ETSA    N +  FE  +R+I
Sbjct: 113 ILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/172 (26%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +   ++ I G+     ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVXIGGEPYTLGLFDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVI 174
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+  I
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 81/169 (47%), Gaps = 16/169 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     + DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLRDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 44/168 (26%), Positives = 81/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F       +   +    M I G+     ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAVTVM-IGGEPYTLGLFDTAGQED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 81/169 (47%), Gaps = 16/169 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+       T+   +    M I G+     ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQE 62
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 60.5 bits (145), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 81/169 (47%), Gaps = 16/169 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAG E
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGLE 66
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL  
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 125
Query: 134 -----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
                E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 126 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 174

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 44/168 (26%), Positives = 81/168 (48%), Gaps = 16/168 (9%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K V++GD AVGK+ LL  Y  N+F      T+   +    M I G+     ++DTAG E 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGLED 63
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL--- 133
           +  +    Y      L+ + +   ++F+++  +W+ E+  H   T   +LVG + DL   
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 134 ----ESI-----RNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFE 171
               E +     + ++ E  + LA + + + ++E SAL    +K+ F+
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 170

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 52/169 (30%), Positives = 84/169 (49%), Gaps = 10/169 (5%)
Query: 29  KSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG 88
           KS+L+ R+ +  F      TI   ++ Q +  D      QI DT G  +F A+       
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 89  AVGALIVYDITRRTTFD---SISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK 145
               ++V+ +T + + +    I + + ++K  S   +  MLVGNKCD E+ R V T E +
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIK-GSVEDIPVMLVGNKCD-ETQREVDTREAQ 137
Query: 146 SLAEAEGLFFMETSALDSTNVKSAF-EIVIREIYSNVSRKVLNSDSYKA 193
           ++A+     FMETSA  + NVK  F E++  E   N+S   LN D  ++
Sbjct: 138 AVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMS---LNIDGKRS 183

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 53/166 (31%), Positives = 82/166 (49%), Gaps = 14/166 (8%)
Query: 19  IVIIGDSAVGKSNL----LSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           + I+G    GKS L    L++   +E++P+ + T   E       +D + V  ++ DTA 
Sbjct: 24  LAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSE-----ETVDHQPVHLRVMDTAD 78
Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT---VARMLVGNKC 131
            +  R     Y   A   L+VY +  R +FDS S +L+ L  H+  T   +  +L+GNK 
Sbjct: 79  LDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKL 137
Query: 132 DLESIRNVSTEEGKSLAEAEGLFFMETSA-LDSTNVKSAFEIVIRE 176
           D+   R V+  EG +LA   G  F E SA LD  +V+  F   +RE
Sbjct: 138 DMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVRE 183

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 58/124 (46%), Gaps = 6/124 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++I+G    GK+ +L +++ NE   H+  TIG   +    EI     +  +WD  GQE 
Sbjct: 23  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE----EIVINNTRFLMWDIGGQES 77
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESI 136
            R+  + YY      ++V D T R         L ++  H D   A +L+  NK D++  
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 137
Query: 137 RNVS 140
             V+
Sbjct: 138 MTVA 141

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 58/124 (46%), Gaps = 6/124 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++I+G    GK+ +L +++ NE   H+  TIG   +    EI     +  +WD  GQE 
Sbjct: 24  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE----EIVINNTRFLMWDIGGQES 78
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESI 136
            R+  + YY      ++V D T R         L ++  H D   A +L+  NK D++  
Sbjct: 79  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 138
Query: 137 RNVS 140
             V+
Sbjct: 139 MTVA 142

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 58/124 (46%), Gaps = 6/124 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++I+G    GK+ +L +++ NE   H+  TIG   +    EI     +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE----EIVINNTRFLMWDIGGQES 72
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESI 136
            R+  + YY      ++V D T R         L ++  H D   A +L+  NK D++  
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 132
Query: 137 RNVS 140
             V+
Sbjct: 133 MTVA 136

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 58/124 (46%), Gaps = 6/124 (4%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++I+G    GK+ +L +++ NE   H+  TIG   +    EI     +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE----EIVINNTRFLMWDIGGQES 72
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLESI 136
            R+  + YY      ++V D T R         L ++  H D   A +L+  NK D++  
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 132
Query: 137 RNVS 140
             V+
Sbjct: 133 MTVA 136

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 53/118 (44%), Gaps = 6/118 (5%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++I+G    GK+ +L ++  NE   H+  TIG   +    EI  K     +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFLMNEV-VHTSPTIGSNVE----EIVVKNTHFLMWDIGGQES 72
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
            R+  + YY      ++V D   R         L  +  H D   A +L+  NK D++
Sbjct: 73  LRSSWNTYYSNTEFIILVVDSIDRERLAITKEELYRMLAHEDLRKAAVLIFANKQDMK 130

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/119 (26%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T    +  K VK  +WD  GQ+
Sbjct: 323 MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVET----VTYKNVKFNVWDVGGQD 377
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 378 KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 436

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/119 (26%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  GQ+
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 68
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 69  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 127

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/119 (26%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 67
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 126

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/119 (26%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  GQ+
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 55
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 56  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 114

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/119 (26%), Positives = 55/119 (46%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  GQ+
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 55
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 56  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 114

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/122 (24%), Positives = 62/122 (50%), Gaps = 7/122 (5%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNP--HSKATIGVEFQTQSMEIDGK---EVKAQIWDT 72
           K+ I+G++  GK+ LL +  + + +      AT+G++ +   ++I  K   ++   +WD 
Sbjct: 4   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 63
Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITR-RTTFDSISRWLDELKTHSDTTVARMLVGNKC 131
           AG+E F +    +       L VYD+++ +   D+   WL  +K  + ++   +LVG   
Sbjct: 64  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPV-ILVGTHL 122
Query: 132 DL 133
           D+
Sbjct: 123 DV 124

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/122 (24%), Positives = 62/122 (50%), Gaps = 7/122 (5%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNP--HSKATIGVEFQTQSMEIDGK---EVKAQIWDT 72
           K+ I+G++  GK+ LL +  + + +      AT+G++ +   ++I  K   ++   +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITR-RTTFDSISRWLDELKTHSDTTVARMLVGNKC 131
           AG+E F +    +       L VYD+++ +   D+   WL  +K  + ++   +LVG   
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPV-ILVGTHL 120
Query: 132 DL 133
           D+
Sbjct: 121 DV 122

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 50/117 (42%), Gaps = 6/117 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+I+G    GK+ +L R    E    +K TIG   +T S     K +K  +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNVETLSY----KNLKLNVWDLGGQT 73
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCD 132
             R     YY      + V D T +    + S+ L  +    +   A +LV  NK D
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQD 130

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 54/118 (45%), Gaps = 6/118 (5%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+ +G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  GQ++
Sbjct: 2   RILXLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQDK 56
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
            R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 57  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRDAIILIFANKQDLP 114

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 33/128 (25%), Positives = 57/128 (44%), Gaps = 12/128 (9%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNICFTVWDVGGQD 72
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR----MLVGNKCD 132
           R R +   Y++   G + V D   R     ++   DEL+        R    +L  NK D
Sbjct: 73  RIRPLWKHYFQNTQGLIFVVDSNDRERIQEVA---DELQKMLLVDELRDAVLLLFANKQD 129
Query: 133 LESIRNVS 140
           L +   +S
Sbjct: 130 LPNAMAIS 137

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 56/123 (45%), Gaps = 16/123 (13%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G    GK+ +L +    E    +  TIG   +T    +  K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVET----VQYKNISFTVWDVGGQD 72
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTF----DSISRWL--DELKTHSDTTVARMLVGNK 130
           R R++   YYR   G + V D   R+      + + R L  DEL+       A ++  NK
Sbjct: 73  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELR-----NAAWLVFANK 127
Query: 131 CDL 133
            DL
Sbjct: 128 QDL 130

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 56/123 (45%), Gaps = 16/123 (13%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G    GK+ +L +    E    +  TIG   +T    +  K +   +WD  GQ+
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVET----VQYKNISFTVWDVGGQD 55
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTF----DSISRWL--DELKTHSDTTVARMLVGNK 130
           R R++   YYR   G + V D   R+      + + R L  DEL+       A ++  NK
Sbjct: 56  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELR-----NAAWLVFANK 110
Query: 131 CDL 133
            DL
Sbjct: 111 QDL 113

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 28/118 (23%), Positives = 52/118 (44%), Gaps = 5/118 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            ++ ++G    GK+  ++  A  +FN     T+G   +    +I    V  ++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR----KITKGNVTIKLWDIGGQP 78
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDL 133
           RFR++   Y RG    + + D   +   ++    L  L        +  +++GNK DL
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDL 136

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/119 (26%), Positives = 54/119 (45%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  G +
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGLD 68
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 69  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 127

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/119 (26%), Positives = 54/119 (45%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  G +
Sbjct: 3   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGLD 57
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 58  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 116

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/118 (26%), Positives = 51/118 (43%), Gaps = 6/118 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G    GK+ +L +    E    +  TIG   +T    +  K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVET----VQYKNISFTVWDVGGQD 72
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
           R R++   YYR   G + V D   R+        +  +    +   A  LV  NK DL
Sbjct: 73  RIRSLWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDL 130

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/119 (26%), Positives = 54/119 (45%), Gaps = 6/119 (5%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    + +  +  T+G   +T +     K VK  +WD  G +
Sbjct: 4   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGLD 58
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   YY G  G + V D   R   D   + L  +    +   A +L+  NK DL 
Sbjct: 59  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 117

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/120 (23%), Positives = 52/120 (43%), Gaps = 5/120 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            ++ ++G    GK+  ++  A  +FN     T+G   +    +I    V  ++WD  GQ 
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR----KITKGNVTIKLWDIGGQP 87
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLES 135
           RFR++   Y RG    + + D   +   ++    L  L        +  +++GNK DL  
Sbjct: 88  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 147

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/123 (25%), Positives = 57/123 (46%), Gaps = 11/123 (8%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            ++ ++G    GK+  ++  A  +F+     T+G   +    ++    V  +IWD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVGFNMR----KVTKGNVTIKIWDIGGQP 78
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT----VARMLVGNKCD 132
           RFR++   Y RG    + + D   R   ++ SR  +EL    D      +  +++GNK D
Sbjct: 79  RFRSMWERYCRGVNAIVYMIDAADREKIEA-SR--NELHNLLDKPQLQGIPVLVLGNKRD 135
Query: 133 LES 135
           L +
Sbjct: 136 LPN 138

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 56/125 (44%), Gaps = 6/125 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 72
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   Y++   G + V D   R   +     L  +    +   A +LV  NK DL +
Sbjct: 73  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 132
Query: 136 IRNVS 140
             N +
Sbjct: 133 AMNAA 137

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 56/125 (44%), Gaps = 6/125 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 55
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   Y++   G + V D   R   +     L  +    +   A +LV  NK DL +
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115
Query: 136 IRNVS 140
             N +
Sbjct: 116 AMNAA 120

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 56/125 (44%), Gaps = 6/125 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 17  MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 71
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   Y++   G + V D   R   +     L  +    +   A +LV  NK DL +
Sbjct: 72  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 131
Query: 136 IRNVS 140
             N +
Sbjct: 132 AMNAA 136

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 56/125 (44%), Gaps = 6/125 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 166 MRILMVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 220
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   Y++   G + V D   R   +     L  +    +   A +LV  NK DL +
Sbjct: 221 KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 280
Query: 136 IRNVS 140
             N +
Sbjct: 281 AMNAA 285

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 16/130 (12%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 21  MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNVET----VEYKNISFTVWDVGGQD 75
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTF----DSISRWL--DELKTHSDTTVARMLVGNK 130
           + R +   Y++   G + V D   R       D + R L  DEL+         ++  NK
Sbjct: 76  KIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR-----DAVLLVFANK 130
Query: 131 CDLESIRNVS 140
            DL +  N +
Sbjct: 131 QDLPNAMNAA 140

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/119 (26%), Positives = 53/119 (44%), Gaps = 6/119 (5%)
Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+++G  A GK+ +L +    E    +  TIG   +T    ++ + +   +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKVKLGEV-VTTIPTIGFNVET----VEFRNISFTVWDVGGQDK 73
Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
            R +   YY    G + V D   R   D     L  +    +   A +LV  NK DL +
Sbjct: 74  IRPLWRHYYSNTDGLIFVVDSNDRERIDDAREELHRMINEEELKDAIILVFANKQDLPN 132

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 56/125 (44%), Gaps = 6/125 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+++L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTSILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQD 72
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   YY+     + V D   R         L ++    +   A +LV  NK DL  
Sbjct: 73  KIRPLWRHYYQNTQAIIFVVDSNDRDRIGEAREELMKMLNEDEMRNAILLVFANKHDLPQ 132
Query: 136 IRNVS 140
             ++S
Sbjct: 133 AMSIS 137

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 57/125 (45%), Gaps = 6/125 (4%)
Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG   +T    ++ K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNVET----VEYKNICFTVWDVGGQD 84
Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   Y++   G + V D   R      +  L ++    +   A +LV  NK D+ +
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN 144
Query: 136 IRNVS 140
              VS
Sbjct: 145 AMPVS 149

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	222
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-110
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-110
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-110
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-110
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-109
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-109
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-108
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-107
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-107
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-107
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-107
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-107
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-107
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-107
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-105
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-105
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-105
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-105
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-105
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-104
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-104
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-104
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-104
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-104
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-104
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-104
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-104
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-103
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-103
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-103
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-103
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-102
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-102
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-102
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-102
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-101
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-99
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-99
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	6e-98
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	9e-98
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	4e-94
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-92
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	9e-89
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-84
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	8e-83
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	6e-82
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	2e-79
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	7e-79
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	3e-78
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	5e-78
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	3e-75
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	6e-75
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	3e-74
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-73
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	5e-72
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-71
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	4e-70
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	4e-70
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-69
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	9e-69
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-68
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	4e-68
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	2e-67
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	5e-67
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	7e-67
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-66
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-65
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	1e-59
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	1e-57
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	3e-56
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	4e-51
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	2e-47
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	8e-46
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	7e-45
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	2e-44
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	1e-43
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	9e-43
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	3e-42
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	9e-42
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	2e-41
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	1e-40
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-40
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	4e-40
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-30
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	2e-27
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	4e-22
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	4e-13
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	6e-13
3llu_A	196	RAS-related GTP-binding protein C; structural geno	8e-13
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	2e-12
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	3e-12
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	5e-12
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	6e-12
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	1e-11
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-11
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	3e-11
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	6e-11
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	1e-10
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	1e-10
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	4e-09
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	9e-09
2ged_A	193	SR-beta, signal recognition particle receptor beta	2e-08
1nrj_B	218	SR-beta, signal recognition particle receptor beta	4e-07
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	9e-07
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	2e-06
2fh5_B	214	SR-beta, signal recognition particle receptor beta	5e-06

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  315 bits (809), Expect = e-110
 Identities = 113/226 (50%), Positives = 150/226 (66%), Gaps = 9/226 (3%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSS D        + LFKIV+IGDS VGKSNLLSR+ +NEFN  SK+TIGVEF T+++EI
Sbjct: 1   MSSEDYGYD---YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI 57

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           +GK +KAQIWDTAGQER+RA+TSAYYRGAVGALIVYDI++ +++++ + WL EL+ ++D 
Sbjct: 58  EGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADD 117

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
            VA  L+GNK DL  +R V TEE K+ A+   L F ETSAL+S NV  AFE +I  IY  
Sbjct: 118 NVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQK 177

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSET------DGSKQTSGYFSCC 220
           VS+  ++     A  + N  +     T          + +   +CC
Sbjct: 178 VSKHQMDLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNCC 223

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  314 bits (806), Expect = e-110
 Identities = 110/190 (57%), Positives = 145/190 (76%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTA
Sbjct: 3   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 62

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+R +TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL
Sbjct: 63  GQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 122

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
             +R V T+E ++ AE   L F+ETSALDSTNV+ AF+ ++ EIY  VS+K +   +   
Sbjct: 123 RHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAHD 182

Query: 194 ELSLNRVTLV 203
           E   N V  +
Sbjct: 183 ESPGNNVVDI 192

>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* Length = 186

 Score =  312 bits (803), Expect = e-110
 Identities = 77/178 (43%), Positives = 114/178 (64%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFK ++IG++  GKS LL ++   +F   S  TIGVEF ++ + + GK VK QIWDTA
Sbjct: 8   DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA 67

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR+VT +YYRGA GAL+VYDIT R T+++++ WL + +  +   +  +L GNK DL
Sbjct: 68  GQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 127

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSY 191
           ++ R V+  E    A+   L F+ETSAL   NV+ AF    R+I + +    L+ +  
Sbjct: 128 DADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDPERM 185

>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* Length = 206

 Score =  312 bits (802), Expect = e-110
 Identities = 94/207 (45%), Positives = 139/207 (67%), Gaps = 6/207 (2%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+++IG+S VGKS LL R++ + +     +TIGV+F+ +++E+DGK VK QIWDTA
Sbjct: 6   DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTA 65

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +TS+YYRG+ G +IVYD+T + +F+ +  WL E+  ++ +TV ++LVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL 125

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
           +  R V  +  K  A+A  + F+ETSALDSTNV+ AF  + R+I  ++S++ LN  + K 
Sbjct: 126 KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKK 185

Query: 194 ELSLNRVTLVKSETDGSKQTSGYFSCC 220
           E   N    V  +      T G   CC
Sbjct: 186 EDKGN----VNLKGQSLTNTGG--CCC 206

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  311 bits (800), Expect = e-109
 Identities = 83/188 (44%), Positives = 116/188 (61%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
           SS     G    ++LFK ++IG +  GKS LL ++  N+F   S  TIGVEF ++ + + 
Sbjct: 11  SSGLVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVG 70

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT 121
           GK VK QIWDTAGQERFR+VT +YYRGA GAL+VYDIT R T++S++ WL + +T +   
Sbjct: 71  GKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPN 130

Query: 122 VARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
           +  +L GNK DL+  R V+  E    A+   L F+ETSAL   NV+ AF    R I + +
Sbjct: 131 IVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKI 190

Query: 182 SRKVLNSD 189
               L+ +
Sbjct: 191 DSGELDPE 198

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  309 bits (795), Expect = e-109
 Identities = 108/178 (60%), Positives = 142/178 (79%), Gaps = 5/178 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           M + D+E      +YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++
Sbjct: 19  MGTRDDE-----YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 73

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           DGK +KAQIWDTAG ER+RA+TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+
Sbjct: 74  DGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADS 133

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +  MLVGNK DL  +R V T+E ++ AE  GL F+ETSALDSTNV++AF+ ++ EIY
Sbjct: 134 NIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>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} Length = 193

 Score =  309 bits (793), Expect = e-108
 Identities = 102/184 (55%), Positives = 135/184 (73%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
            SS     G     ++FK+V+IG+S VGK+NLLSR+ RNEF+  S+ TIGVEF T+++ +
Sbjct: 10  HSSGLVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML 69

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
               VKAQIWDTAG ER+RA+TSAYYRGAVGAL+V+D+T+  T+  + RWL EL  H++ 
Sbjct: 70  GTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEA 129

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           T+  MLVGNK DL   R V TEE +  AE  GL F+ETSALDSTNV+ AFE V++EI++ 
Sbjct: 130 TIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAK 189

Query: 181 VSRK 184
           VS++
Sbjct: 190 VSKQ 193

>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* Length = 179

 Score =  306 bits (785), Expect = e-107
 Identities = 85/166 (51%), Positives = 115/166 (69%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FK +IIGD  VGKS LL ++   +F      TIGVEF T+ +E+ G+++K QIWDTAG
Sbjct: 14  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG 73

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFRAVT +YYRGA GAL+VYDITRR+T++ +S WL + +  ++     +L+GNK DLE
Sbjct: 74  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE 133

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           + R+V+ EE K  AE  GL F+E SA    NV+ AF    ++IY N
Sbjct: 134 AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQN 179

>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* Length = 181

 Score =  305 bits (785), Expect = e-107
 Identities = 66/177 (37%), Positives = 107/177 (60%)

Query: 8   GGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKA 67
              G +    K+V++GD   GKS+L+ R+ +++F    ++TIG  F +Q++ ++   VK 
Sbjct: 4   AAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKF 63

Query: 68  QIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV 127
           +IWDTAGQER+ ++   YYRGA  A+IV+D+T + +F+   +W+ EL+   +  +   L 
Sbjct: 64  EIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALA 123

Query: 128 GNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
           GNK DL   R V+ E+ ++ A+  GLFFMETSA  +TNVK  F  + R +      +
Sbjct: 124 GNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>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 Length = 201

 Score =  306 bits (786), Expect = e-107
 Identities = 78/192 (40%), Positives = 120/192 (62%), Gaps = 2/192 (1%)

Query: 1   MSSSDEEGGGGGEEY--LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSM 58
             SS     G  E+Y  LFKIV+IG++ VGK+ L+ R+ +  F P   ATIGV+F  +++
Sbjct: 9   HHSSGLVPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTV 68

Query: 59  EIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS 118
           EI+G++VK QIWDTAGQERFR++T +YYR A   ++ YDIT   +F  +  WL E++ ++
Sbjct: 69  EINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYA 128

Query: 119 DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
              V  +LVGNK DL   R VS +  +  +EA+ ++++ETSA +S NV+  F  +   + 
Sbjct: 129 SNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLI 188

Query: 179 SNVSRKVLNSDS 190
           S   +  L ++ 
Sbjct: 189 SEARQNTLVNNV 200

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  305 bits (784), Expect = e-107
 Identities = 83/193 (43%), Positives = 129/193 (66%), Gaps = 5/193 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSS + E      +YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+
Sbjct: 6   MSSMNPE-----YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 60

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           DGK +K QIWDTAGQERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++  
Sbjct: 61  DGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASE 120

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
            V ++LVGNKCDL + + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI   
Sbjct: 121 NVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR 180

Query: 181 VSRKVLNSDSYKA 193
           +        + K+
Sbjct: 181 MGPGATAGGAEKS 193

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  305 bits (784), Expect = e-107
 Identities = 78/177 (44%), Positives = 121/177 (68%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +Y+FKI+IIG+S+VGK++ L RYA + F P   +T+G++F+ +++  + K +K QIWDTA
Sbjct: 6   DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTA 65

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           G ER+R +T+AYYRGA+G +++YDIT   +F+++  W  ++KT+S      +LVGNKCD+
Sbjct: 66  GLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDM 125

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDS 190
           E  R VS+E G+ LA+  G  F E SA D+ NVK  FE ++  I   +S  +  +D 
Sbjct: 126 EDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTADP 182

>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* Length = 191

 Score =  305 bits (783), Expect = e-107
 Identities = 90/172 (52%), Positives = 120/172 (69%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK +IIGD+ VGKS LL ++    F P    TIGVEF  + + IDGK++K QIWDTAG
Sbjct: 20  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 79

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QE FR++T +YYRGA GAL+VYDITRR TF+ ++ WL++ + HS + +  ML+GNK DLE
Sbjct: 80  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 139

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVL 186
           S R+V  EEG++ A   GL FMETSA  + NV+ AF    +EIY  + + + 
Sbjct: 140 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGLF 191

>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* Length = 183

 Score =  304 bits (780), Expect = e-107
 Identities = 81/177 (45%), Positives = 126/177 (71%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+++IGDS VGK+ +L R++ + FN    +TIG++F+ +++E+DGK +K QIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 65

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +T+AYYRGA+G ++VYDIT   +FD+I  W+  ++ H+   V +M++GNKCD+
Sbjct: 66  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 125

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDS 190
              R VS E G+ LA   G+ FMETSA  + NV++AF  + R+I + + +    + +
Sbjct: 126 NDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKATAA 182

>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* Length = 170

 Score =  300 bits (771), Expect = e-105
 Identities = 67/168 (39%), Positives = 98/168 (58%)

Query: 11  GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW 70
           G   Y FK+V++G+  VGK++L+ RY  N+FN     T+G  F T+ + I GK V   IW
Sbjct: 1   GSRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIW 60

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK 130
           DTAGQERF A+   YYR + GA++VYDIT   +F  +  W+ EL+      +   +VGNK
Sbjct: 61  DTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNK 120

Query: 131 CDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            DLE  R+VS +E +S AE+ G     TSA  +  ++  F  + + + 
Sbjct: 121 IDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>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* Length = 170

 Score =  299 bits (768), Expect = e-105
 Identities = 70/170 (41%), Positives = 105/170 (61%)

Query: 11  GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW 70
           G +   FK+V++G+SAVGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IW
Sbjct: 1   GNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK 130
           DTAGQER+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNK 120

Query: 131 CDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
            DL + R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 121 ADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>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 Length = 180

 Score =  299 bits (768), Expect = e-105
 Identities = 77/179 (43%), Positives = 114/179 (63%), Gaps = 3/179 (1%)

Query: 9   GGGGEEY--LFKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEV 65
           G G + Y   FK++++GDS VGK+ LL R+    F   +  +T+G++F+ + +++DG +V
Sbjct: 1   GSGVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKV 60

Query: 66  KAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM 125
           K Q+WDTAGQERFR+VT AYYR A   L++YD+T + +FD+I  WL E+  ++   VA M
Sbjct: 61  KLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALM 120

Query: 126 LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
           L+GNK D    R V  E+G+ LA+  GL FMETSA    NV  AF  + +E+     + 
Sbjct: 121 LLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKA 179

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  299 bits (769), Expect = e-105
 Identities = 82/181 (45%), Positives = 126/181 (69%), Gaps = 5/181 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSS + E      +YLFK+++IGDS VGKS LL R+A + +     +TIGV+F+ +++E+
Sbjct: 23  MSSMNPE-----YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 77

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           DGK +K QIWDTAGQERFR +TS+YYRGA G ++VYD+T + +F+++ +WL E+  ++  
Sbjct: 78  DGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASE 137

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
            V ++LVGNKCDL + + V     K  A++ G+ F+ETSA ++TNV+ +F  +  EI   
Sbjct: 138 NVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR 197

Query: 181 V 181
           +
Sbjct: 198 M 198

>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* Length = 189

 Score =  299 bits (767), Expect = e-105
 Identities = 77/188 (40%), Positives = 119/188 (63%), Gaps = 6/188 (3%)

Query: 1   MSSSDEEGGGGGE------EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQ 54
           M SS               +Y+FK+++IG+S+VGK++ L RYA + F P   +T+G++F+
Sbjct: 1   MGSSHHHHHHSSGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK 60

Query: 55  TQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL 114
            +++    K +K QIWDTAGQER+R +T+AYYRGA+G L++YDI  + +F ++  W  ++
Sbjct: 61  VKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQI 120

Query: 115 KTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI 174
           KT+S      +LVGNKCDLE  R V  E+G+ LA+  G  F E SA ++ NVK  FE ++
Sbjct: 121 KTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLV 180

Query: 175 REIYSNVS 182
             I   ++
Sbjct: 181 DVICEKMN 188

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  299 bits (767), Expect = e-104
 Identities = 72/220 (32%), Positives = 122/220 (55%), Gaps = 13/220 (5%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MS+    G  G     FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M +
Sbjct: 4   MSTG---GDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL 60

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           + + V+ Q+WDTAG ERFR++  +Y R +  A++VYDIT   +F   ++W+D+++T   +
Sbjct: 61  EDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGS 120

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
            V  MLVGNK DL   R VS EEG+  A+   + F+ETSA    NVK  F  V   +   
Sbjct: 121 DVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM 180

Query: 181 VSRKVLNSDSYKAELSLNRVTLVKSETDGSKQTSGYFSCC 220
            S +  + +        + + +   +      + G   C 
Sbjct: 181 ESTQDRSRE--------DMIDIKLEKPQEQPVSEG--GCL 210

>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 Length = 192

 Score =  298 bits (765), Expect = e-104
 Identities = 65/183 (35%), Positives = 106/183 (57%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
             S      G      K+ ++GD+ VGKS+++ R+ ++ F+ +   TIG  F T+++   
Sbjct: 9   HHSSGLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCG 68

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT 121
            +  K  IWDTAGQERF ++   YYRG+  A+IVYDIT++ +F ++ +W+ ELK H    
Sbjct: 69  NELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPEN 128

Query: 122 VARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
           +   + GNKCDL  IR V  ++ K  AE+ G   +ETSA ++ N++  F+ + R+I    
Sbjct: 129 IVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLD 188

Query: 182 SRK 184
             +
Sbjct: 189 PHE 191

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  298 bits (765), Expect = e-104
 Identities = 68/184 (36%), Positives = 113/184 (61%), Gaps = 3/184 (1%)

Query: 1   MSSSDEEGGGGGEEY--LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSM 58
             SS     G         +++IIG   VGK++L+ R+  + F    K+T+GV+F+ +++
Sbjct: 9   HHSSGLVPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTV 68

Query: 59  EIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS 118
           E+ GK+++ QIWDTAGQERF ++TSAYYR A G ++VYDIT++ TFD + +W+  +  ++
Sbjct: 69  ELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYA 128

Query: 119 DTTVARMLVGNKCDLESIRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
                 +LVGNK D E+ R ++ ++G+  A +  G+ F E SA D+ NV   F  ++ +I
Sbjct: 129 SEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI 188

Query: 178 YSNV 181
              +
Sbjct: 189 LKKM 192

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  297 bits (763), Expect = e-104
 Identities = 59/178 (33%), Positives = 85/178 (47%), Gaps = 4/178 (2%)

Query: 11  GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKE-VKAQI 69
           G      KIV++GD A GK++L + +A+  F    K TIG++F  + + + G   V  QI
Sbjct: 1   GSHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQI 60

Query: 70  WDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK---THSDTTVARML 126
           WD  GQ     +   Y  GA G L+VYDIT   +F+++  W   +K     S+T     L
Sbjct: 61  WDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVAL 120

Query: 127 VGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
           VGNK DLE +R +  E+     +  G      SA    +V   F+ V  EI      K
Sbjct: 121 VGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>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* Length = 170

 Score =  297 bits (762), Expect = e-104
 Identities = 65/169 (38%), Positives = 101/169 (59%)

Query: 11  GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW 70
           G      K+ ++GD+ VGKS+++ R+  + F+P+   TIG  F T++++   +  K  IW
Sbjct: 1   GSALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIW 60

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK 130
           DTAG ERFRA+   YYRG+  A+IVYDIT+  TF ++  W+ EL+ H   ++   + GNK
Sbjct: 61  DTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNK 120

Query: 131 CDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
           CDL  +R V   + K  A++    F+ETSA ++ N+   F  + R I S
Sbjct: 121 CDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 169

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  297 bits (762), Expect = e-104
 Identities = 77/175 (44%), Positives = 111/175 (63%), Gaps = 1/175 (0%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFK++IIGDS VGKS+LL R+A N F+     TIGV+F+ +++EI+G++VK QIWDTA
Sbjct: 7   DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTA 66

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +TS YYRG  G ++VYD+T   +F ++ RWL E+  + D  V R+LVGNK D 
Sbjct: 67  GQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDD 125

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNS 188
              + V TE+    A   G+   ETSA ++ NV+  F  +   +       +   
Sbjct: 126 PERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQ 180

>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} Length = 191

 Score =  297 bits (762), Expect = e-104
 Identities = 81/183 (44%), Positives = 123/183 (67%), Gaps = 1/183 (0%)

Query: 1   MSSSDEEGGGGGE-EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSME 59
            SS  E     G  +Y+FK++IIG+S+VGK++ L RYA + F P   +T+G++F+ +++ 
Sbjct: 7   HSSGRENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVY 66

Query: 60  IDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD 119
              K VK QIWDTAGQER+R +T+AYYRGA+G +++YDIT   +F+++  W  ++KT+S 
Sbjct: 67  RHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSW 126

Query: 120 TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
                +LVGNKCD+E  R V TE+G+ LAE  G  F E SA ++ +V+ AFE ++  I  
Sbjct: 127 DNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICD 186

Query: 180 NVS 182
            +S
Sbjct: 187 KMS 189

>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 Length = 213

 Score =  297 bits (763), Expect = e-104
 Identities = 81/213 (38%), Positives = 134/213 (62%), Gaps = 5/213 (2%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
           + S   G G   + + KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+
Sbjct: 6   TVSASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN 65

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT 121
           GK+VK Q+WDTAGQERFR +T+AYYRGA+G ++VYD+T   TF +I +W   +  H++  
Sbjct: 66  GKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDE 125

Query: 122 VARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
              +LVGNK D+E+ R V+ ++G++LA+  G+ F+E+SA +  NV   F  + + I   +
Sbjct: 126 AQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 184

Query: 182 SRKVLNSDSYKAELSLNRVTLVKSETDGSKQTS 214
               L       E +++    + S +  S +++
Sbjct: 185 DSNKLVGVGNGKEGNIS----INSGSGNSSKSN 213

>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* Length = 179

 Score =  296 bits (759), Expect = e-103
 Identities = 73/178 (41%), Positives = 113/178 (63%), Gaps = 4/178 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           MSS D     G     FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M +
Sbjct: 3   MSSGDF----GNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL 58

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
           + + V+ Q+WDTAGQERFR++  +Y R +  A++VYDIT   +F   S+W+D+++T   +
Sbjct: 59  EDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGS 118

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            V  MLVGNK DL   R VSTEEG+  A+   + F+ETSA    NVK  F  V   + 
Sbjct: 119 DVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 176

>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* Length = 168

 Score =  295 bits (758), Expect = e-103
 Identities = 60/167 (35%), Positives = 96/167 (57%), Gaps = 1/167 (0%)

Query: 12  GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD 71
           G E   K+V++G+ AVGKS+++ RY +  F    K TIGV+F  + ++++ ++V+  +WD
Sbjct: 1   GSEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWD 60

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC 131
           TAGQE F A+T AYYRGA   ++V+  T R +F++IS W +++       +   LV NK 
Sbjct: 61  TAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKI 119

Query: 132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
           DL     +  EE + LA+   L F  TS  +  NV   F+ +  +  
Sbjct: 120 DLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL 166

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  296 bits (759), Expect = e-103
 Identities = 76/175 (43%), Positives = 121/175 (69%), Gaps = 1/175 (0%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFK+V++GD++VGK+ ++ R+    F+    +TIGV+F  +++EI GK VK QIWDTA
Sbjct: 27  DFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTA 86

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +T +YYR A GA++ YDIT+R++F S+  W+++++ ++ + + ++L+GNK DL
Sbjct: 87  GQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDL 146

Query: 134 ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLN 187
             +R VS  E +SLAE    L  +ETSA DS+NV+ AF  V  E+       + +
Sbjct: 147 SELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHGGPLFS 201

>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 Length = 170

 Score =  294 bits (755), Expect = e-103
 Identities = 76/169 (44%), Positives = 118/169 (69%), Gaps = 1/169 (0%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           + + KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+GK+VK QIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +T+AYYRGA+G ++VYDIT   TF +I +W   +  H++     +LVGNK D+
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
           E+ R V+ ++G++LA+  G+ F+E+SA +  NV   F  + + I   + 
Sbjct: 121 ET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKID 168

>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* Length = 195

 Score =  294 bits (754), Expect = e-102
 Identities = 66/186 (35%), Positives = 111/186 (59%), Gaps = 11/186 (5%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID----------GK 63
           +YL K + +GDS VGK+++L +Y   +FN     T+G++F+ + +             G+
Sbjct: 9   DYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQ 68

Query: 64  EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TV 122
            +  Q+WDTAG ERFR++T+A++R A+G L+++D+T   +F ++  W+ +L+ H+ +   
Sbjct: 69  RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENP 128

Query: 123 ARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
             +L GNK DLE  R V  EE + LAE  G+ + ETSA + TN+  A E+++  I   + 
Sbjct: 129 DIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRME 188

Query: 183 RKVLNS 188
           R V  S
Sbjct: 189 RSVDKS 194

>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 Length = 195

 Score =  293 bits (753), Expect = e-102
 Identities = 80/189 (42%), Positives = 112/189 (59%), Gaps = 2/189 (1%)

Query: 3   SSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG 62
           SS   G         KI+IIG+S VGKS+LL R+  + F+P   ATIGV+F+ +++ +DG
Sbjct: 2   SSGSSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDG 61

Query: 63  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TT 121
            + K  IWDTAGQERFR +T +YYRGA G ++VYD+TRR TF  +  WL+EL+T+     
Sbjct: 62  NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRND 121

Query: 122 VARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
           +  MLVGNK D E+ R V   EG   A    + F+E SA     V+ AFE ++ +I    
Sbjct: 122 IVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP 180

Query: 182 SRKVLNSDS 190
                 + +
Sbjct: 181 GLWESENQN 189

>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* Length = 217

 Score =  293 bits (752), Expect = e-102
 Identities = 67/200 (33%), Positives = 115/200 (57%), Gaps = 11/200 (5%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
           SS     G G  +YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ + +  +
Sbjct: 11  SSGLVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYN 70

Query: 62  GKE----------VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWL 111
            +           V  Q+WDTAGQERFR++T+A++R A+G L+++D+T + +F ++  W+
Sbjct: 71  AQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWM 130

Query: 112 DELKTHSDTT-VARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF 170
            +L+ ++       +L+GNK DL   R V+  + + LA+  G+ + ETSA    NV+ A 
Sbjct: 131 SQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAV 190

Query: 171 EIVIREIYSNVSRKVLNSDS 190
           E ++  I   + + V  +  
Sbjct: 191 ETLLDLIMKRMEQCVEKTQI 210

>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* Length = 189

 Score =  291 bits (748), Expect = e-102
 Identities = 71/189 (37%), Positives = 109/189 (57%), Gaps = 9/189 (4%)

Query: 1   MSSSDEEGGG----GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQ 56
           M       G     G    +FKI++IGDS VGK+ L  R+    F   ++ATIGV+F+ +
Sbjct: 1   MGHHHHHHGSLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRER 60

Query: 57  SMEIDGKEVKAQIWDTAGQERFR-AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK 115
           +++IDG+ +K Q+WDTAGQERFR ++   YYR     + VYD+T   +F S+  W++E K
Sbjct: 61  AVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECK 120

Query: 116 TH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSAL---DSTNVKSAFE 171
            H     + R+LVGNKCDL S   V T+  +  A+   +   ETSA    D+ +V++ F 
Sbjct: 121 QHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFM 180

Query: 172 IVIREIYSN 180
            +  ++ S+
Sbjct: 181 TLAHKLKSH 189

>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} Length = 199

 Score =  291 bits (746), Expect = e-101
 Identities = 71/171 (41%), Positives = 106/171 (61%), Gaps = 6/171 (3%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +  +KIV+ GD+AVGKS+ L R  +NEF  +  AT+GV+FQ +++ +DG+    Q+WDTA
Sbjct: 26  QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTA 85

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR++  +Y+R A G L++YD+T   +F +I  W+D ++  +  TV  MLVGNK D+
Sbjct: 86  GQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADI 145

Query: 134 ------ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
                 E  + V    G+ LA   G  F ETSA D +N+  A   + RE+ 
Sbjct: 146 RDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVK 196

>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* Length = 177

 Score =  285 bits (732), Expect = 2e-99
 Identities = 69/174 (39%), Positives = 107/174 (61%), Gaps = 6/174 (3%)

Query: 12  GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD 71
           G+  LFK++++GD  VGKS+L++RY  N+F+     TIGVEF  + +E+DG  V  QIWD
Sbjct: 3   GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 62

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT----VARMLV 127
           TAGQERFR++ + +YRG+   L+ + +    +F ++S W  E   ++D         +++
Sbjct: 63  TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 122

Query: 128 GNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSN 180
           GNK D+   R VSTEE ++     G   + ETSA D+TNV +AFE  +R + + 
Sbjct: 123 GNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLAT 175

>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* Length = 207

 Score =  286 bits (733), Expect = 2e-99
 Identities = 66/212 (31%), Positives = 112/212 (52%), Gaps = 15/212 (7%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           + L K++I+GDS VGK++L+++Y   +F+   KATIG +F T+ + +D + V  QIWDTA
Sbjct: 6   KVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTA 65

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVGN 129
           GQERF+++  A+YRGA   ++V+D+T   TF ++  W DE    +          +++GN
Sbjct: 66  GQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGN 125

Query: 130 KCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSD 189
           K DLE+ +  +            + + ETSA ++ NV+ AF+ + R      +   L ++
Sbjct: 126 KIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNE 185

Query: 190 SYKAELSLNRVTLVKSETDGSKQTSGYFSCCS 221
                     + L K+E   +         CS
Sbjct: 186 ------FPEPIKLDKNERAKASA-----ESCS 206

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  282 bits (724), Expect = 6e-98
 Identities = 48/184 (26%), Positives = 84/184 (45%), Gaps = 9/184 (4%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYAR--NEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW-- 70
              K+ ++G++ VGKS L+S +    ++F      T GVE     + I    V  +++  
Sbjct: 19  LRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLL 78

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKT---HSDTTVARMLV 127
           DTAG + ++   S Y+ G   A++V+D++   +F+S   W + LK+     +  +  +LV
Sbjct: 79  DTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLV 138

Query: 128 GNKCDLESIRN-VSTEEGKSLAEAEGLFFMETSA-LDSTNVKSAFEIVIREIYSNVSRKV 185
            NK DL   R+ V  +  +  A    L F + SA     +  + F  +    Y N   KV
Sbjct: 139 ANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDKV 198

Query: 186 LNSD 189
               
Sbjct: 199 AAFQ 202

>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} Length = 218

 Score =  282 bits (724), Expect = 9e-98
 Identities = 48/186 (25%), Positives = 88/186 (47%), Gaps = 3/186 (1%)

Query: 8   GGGGGEEY--LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVE-FQTQSMEIDGKE 64
           G G  E     +KI +IGD  VGK+  ++R     F  +  AT+G        ++  G  
Sbjct: 1   GPGSMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNV 60

Query: 65  VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR 124
           +K  +WDTAGQE+   +   YY GA GA++ +D+T R T  +++RW+ E +         
Sbjct: 61  IKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPI 120

Query: 125 MLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
           ++  NK D+++ + +S +    + + +   + E SA  + N    F  + R         
Sbjct: 121 VVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLI 180

Query: 185 VLNSDS 190
            +++ +
Sbjct: 181 FVSNVN 186

>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* Length = 182

 Score =  272 bits (697), Expect = 4e-94
 Identities = 66/174 (37%), Positives = 109/174 (62%), Gaps = 7/174 (4%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG-KEVKAQIWDT 72
           + + K++I+GDS VGK++L+ RY  ++++   KATIG +F T+ + +DG K    Q+WDT
Sbjct: 6   KNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDT 65

Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLVG 128
           AGQERF+++  A+YRGA   ++VYD+T  ++F++I  W DE   H++     T   +++G
Sbjct: 66  AGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILG 125

Query: 129 NKCDLESI-RNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYSN 180
           NK D E   + VS +  + LA++ G +    TSA ++ NV +AFE + R     
Sbjct: 126 NKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ 179

>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} 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* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  269 bits (691), Expect = 1e-92
 Identities = 50/210 (23%), Positives = 96/210 (45%), Gaps = 4/210 (1%)

Query: 7   EGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVK 66
               G  +  FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K
Sbjct: 6   SAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIK 65

Query: 67  AQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARML 126
             +WDTAGQE+F  +   YY  A  A+I++D+T R T+ ++  W  +L    +  +  +L
Sbjct: 66  FNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVL 124

Query: 127 VGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVL 186
            GNK D++  +     +       + L + + SA  + N +  F  + R++  + + + +
Sbjct: 125 CGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFV 182

Query: 187 NSDSYK-AELSLNRVTLVKSETDGSKQTSG 215
              +    E+ ++     + E D     + 
Sbjct: 183 AMPALAPPEVVMDPALAAQYEHDLEVAQTT 212

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  259 bits (664), Expect = 9e-89
 Identities = 62/209 (29%), Positives = 103/209 (49%), Gaps = 40/209 (19%)

Query: 10  GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKA-- 67
           G  ++  +K V++G+S+VGKS+++ R  ++ F+ ++  TIG  F T  + ++   +K   
Sbjct: 1   GMEKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNS 60

Query: 68  -----------------------------------QIWDTAGQERFRAVTSAYYRGAVGA 92
                                               IWDTAGQER+ ++   YYRGA  A
Sbjct: 61  NNEKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCA 120

Query: 93  LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG 152
           ++V+DI+   T D    W+++LK  S+  +  +LV NK D      V   E +  A+   
Sbjct: 121 IVVFDISNSNTLDRAKTWVNQLKISSNYII--ILVANKIDKNK-FQVDILEVQKYAQDNN 177

Query: 153 LFFMETSALDSTNVKSAFEIVIREIYSNV 181
           L F++TSA   TN+K+ F ++  EIY N+
Sbjct: 178 LLFIQTSAKTGTNIKNIFYMLAEEIYKNI 206

>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} Length = 195

 Score =  247 bits (634), Expect = 2e-84
 Identities = 49/185 (26%), Positives = 82/185 (44%), Gaps = 2/185 (1%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
           S  +     G ++ +FK++++G+S VGKS L   +   + +   +     +   + + +D
Sbjct: 9   SGRENLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVD 68

Query: 62  GKEVKAQIWDTAGQERFRAV-TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT 120
            +EV   ++D   Q            +     LIV+ +T R +F  +   L  L+     
Sbjct: 69  KEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPH 128

Query: 121 -TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
             +  +LVGNK DL   R VS EEG+ LA       +ETSA    N +  FE  +R+I  
Sbjct: 129 HDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRL 188

Query: 180 NVSRK 184
              R 
Sbjct: 189 RRGRN 193

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  242 bits (621), Expect = 8e-83
 Identities = 46/164 (28%), Positives = 76/164 (46%), Gaps = 2/164 (1%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           +FK++++G+S VGKS L   +   + +   +     +   + + +D +EV   ++D   Q
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61

Query: 76  ERFRAV-TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDL 133
                       +     LIV+ +T R +F  +   L  L+       +  +LVGNK DL
Sbjct: 62  GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDL 121

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
              R VS EEG+ LA       +ETSA    N +  FE  +R+I
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>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 Length = 170

 Score =  240 bits (615), Expect = 6e-82
 Identities = 69/166 (41%), Positives = 98/166 (59%), Gaps = 3/166 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+V++G++AVGKS+++ R+  N+F  + + TIG  F TQ + I+   VK +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD---L 133
           RF ++   YYR A  AL+VYD+T+  +F     W+ EL   +   +   LVGNK D    
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
              R V+ EEG+ LAE +GL F ETSA    NV   F  +  +I  
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPL 169

>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* Length = 168

 Score =  233 bits (598), Expect = 2e-79
 Identities = 59/164 (35%), Positives = 93/164 (56%), Gaps = 2/164 (1%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGQ 62

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLE 134
           E + A+   Y+R   G L V+ IT   +F + + + ++ L+   D  V  +LVGNK DLE
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
             R VS EE K+ A+   + ++ETSA    NV   F  ++REI 
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR 166

>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* Length = 187

 Score =  233 bits (597), Expect = 7e-79
 Identities = 63/178 (35%), Positives = 96/178 (53%), Gaps = 2/178 (1%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
             S   GG      L K++++G   VGKS L  ++  +EF    + T    ++ + + +D
Sbjct: 4   GISGGGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLD 62

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDT 120
           G+EV+  I DTAGQE + A+   Y+R   G L V+ IT   +F + + + ++ L+   D 
Sbjct: 63  GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDE 122

Query: 121 TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            V  +LVGNK DLE  R VS EE K+ AE   + ++ETSA    NV   F  ++REI 
Sbjct: 123 NVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIR 180

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  232 bits (595), Expect = 3e-78
 Identities = 63/193 (32%), Positives = 102/193 (52%), Gaps = 4/193 (2%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           M+++  +G       L K++++G   VGKS L  ++  +EF    + T    ++ + + +
Sbjct: 1   MAANKPKGQNS--LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVL 57

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSD 119
           DG+EV+  I DTAGQE + A+   Y+R   G L V+ IT   +F + + + ++ L+   D
Sbjct: 58  DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED 117

Query: 120 TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
             V  +LVGNK DLE  R VS EE K+ AE   + ++ETSA    NV   F  ++REI +
Sbjct: 118 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA 177

Query: 180 NVSRKVLNSDSYK 192
                    +  K
Sbjct: 178 RKMEDSKEKNGKK 190

>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} Length = 175

 Score =  230 bits (590), Expect = 5e-78
 Identities = 55/166 (33%), Positives = 88/166 (53%), Gaps = 4/166 (2%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L+++V++GD  VGK++L S +A  +        +G +   +++ +DG++    + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQER-DLHEQLGEDVYERTLTVDGEDTTLVVVDTWEA 62

Query: 76  ERFRAVTS--AYYRGAVGALIVYDITRRTTFDSISRWLDELK-THSDTTVARMLVGNKCD 132
           E+     S  +  +G    +IVY I  R +F+S S    +L+ TH    V  +LVGNK D
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKAD 122

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
           L   R VS EEG++ A      F+ETSA    NV   FE V+R++ 
Sbjct: 123 LARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLR 168

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  223 bits (572), Expect = 3e-75
 Identities = 51/163 (31%), Positives = 84/163 (51%), Gaps = 3/163 (1%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           ++K++++G   VGKS L   +   E  P +    G  +  +S+ +DG+E    ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFGGVEDGPEA-EAAGHTY-DRSIVVDGEEASLMVYDIWEQ 59

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLE 134
           +  R +           +IVY +T + +F+  S    +L+    T  V  +LVGNK DL 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R VS +EG++ A      F+ETSA    NV++ FE V+R+I
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  224 bits (573), Expect = 6e-75
 Identities = 53/164 (32%), Positives = 83/164 (50%), Gaps = 2/164 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
              K+VI+G   VGK++L  ++   EF+     T+   +    + +   E    + DTAG
Sbjct: 23  RYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKI-VTLGKDEFHLHLVDTAG 81

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDL 133
           Q+ +  +  ++  G  G ++VY +T   +F  I     +  + H  T V  +LVGNK DL
Sbjct: 82  QDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADL 141

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
              R V   EGK LAE+ G  FME+SA ++   +  F  VI+EI
Sbjct: 142 SPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEI 185

>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 Length = 211

 Score =  222 bits (569), Expect = 3e-74
 Identities = 54/190 (28%), Positives = 90/190 (47%), Gaps = 7/190 (3%)

Query: 3   SSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA-TIGVEFQTQSMEID 61
           S+D           +++V+IG+  VGKS L + +A    +  S    +G +   +++ +D
Sbjct: 24  STDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVD 83

Query: 62  GKE---VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS 118
           G+    +   +W+  G+  +  +     +     LIVY IT R +F+  S    +L+   
Sbjct: 84  GESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRAR 141

Query: 119 DT-TVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            T  +  +LVGNK DL   R VS  EG++ A      F+ETSA    NVK  FE ++R++
Sbjct: 142 QTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 201

Query: 178 YSNVSRKVLN 187
                 K  N
Sbjct: 202 RLRRDSKEKN 211

>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* Length = 181

 Score =  220 bits (562), Expect = 1e-73
 Identities = 52/164 (31%), Positives = 79/164 (48%), Gaps = 2/164 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
              K+V++G   VGKS L  ++ ++ F      TI   +      +DG   +  I DTAG
Sbjct: 8   ETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKI-CSVDGIPARLDILDTAG 66

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDL 133
           QE F A+   Y R   G L+V+ I  R +F+ + +   + L+         +LVGNK DL
Sbjct: 67  QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADL 126

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           ES R V   E  +   +  + + E SA    NV  AFE ++R +
Sbjct: 127 ESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 170

>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* Length = 184

 Score =  216 bits (551), Expect = 5e-72
 Identities = 36/175 (20%), Positives = 79/175 (45%), Gaps = 11/175 (6%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNP--HSKATIGVEFQTQSMEIDGK---EVKAQIWD 71
            K++I+G++  GK+ LL +  + + +      AT+G++ +   ++I  K   ++   +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRR-TTFDSISRWLDELKTHSDTTVARMLVGNK 130
            AG+E F +    +       L VYD+++     D++  WL  +K  + ++   +LVG  
Sbjct: 63  FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSP-VILVGTH 121

Query: 131 CDLESIR---NVSTEEGKSLAEAEGL-FFMETSALDSTNVKSAFEIVIREIYSNV 181
            D+   +      ++  K L    G     +   +++T    A   + + I +  
Sbjct: 122 LDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINES 176

>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* Length = 192

 Score =  215 bits (549), Expect = 1e-71
 Identities = 51/174 (29%), Positives = 86/174 (49%), Gaps = 7/174 (4%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKE---VKAQIWD 71
            +++V+IG+  VGKS L + +A    +  S    +G +   +++ +DG+    +   +W+
Sbjct: 6   YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWE 65

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNK 130
             G+  +  +     +     LIVY IT R +F+  S    +L+    T  +  +LVGNK
Sbjct: 66  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123

Query: 131 CDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
            DL   R VS  EG++ A      F+ETSA    NVK  FE ++R++      K
Sbjct: 124 SDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 177

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  211 bits (539), Expect = 4e-70
 Identities = 53/164 (32%), Positives = 81/164 (49%), Gaps = 2/164 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
              KI I+G  +VGKS+L  ++   +F      TI   F    + ++G+E   Q+ DTAG
Sbjct: 5   KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKL-ITVNGQEYHLQLVDTAG 63

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDL 133
           Q+ +      Y     G ++VY +T   +F+ I     + L       +  MLVGNK DL
Sbjct: 64  QDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL 123

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
              R +S EEGK+LAE+    F+E+SA ++      F  +I E 
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEA 167

>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* ... Length = 166

 Score =  210 bits (537), Expect = 4e-70
 Identities = 57/162 (35%), Positives = 90/162 (55%), Gaps = 3/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQ-VVIDGETCLLDILDTAGQE 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNK DL +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA 122

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  209 bits (534), Expect = 2e-69
 Identities = 45/163 (27%), Positives = 75/163 (46%), Gaps = 3/163 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++ + G   VGKS+L+ R+ +  F      T+   ++   +  D      QI DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQV-ISCDKSICTLQITDTTGSH 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT--VARMLVGNKCDLE 134
           +F A+           ++VY IT R + + +    +++         +  MLVGNKCD  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R V + E ++LA      FMETSA  + NVK  F+ ++   
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE 165

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  207 bits (530), Expect = 9e-69
 Identities = 55/165 (33%), Positives = 85/165 (51%), Gaps = 3/165 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             +K+V++GD  VGKS L  ++ +  F      TI   +     EID +     + DTAG
Sbjct: 17  PTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYLKH-TEIDNQWAILDVLDTAG 75

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDL 133
           QE F A+   Y R   G LIVY +T + +F+ + R+   +    D  +   +LV NK DL
Sbjct: 76  QEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDL 135

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEIVIREI 177
             +R V+ ++GK +A    + ++ETSA D   NV   F  ++R I
Sbjct: 136 MHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>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* Length = 167

 Score =  206 bits (528), Expect = 1e-68
 Identities = 57/162 (35%), Positives = 88/162 (54%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++    F      TI  +F  + +E+D      +I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
           +F ++   Y +   G ++VY +  + +F  I    D+ ++      V  +LVGNK DLES
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R VS+ EG++LAE  G  FMETSA   T V   F  ++R++
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>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* Length = 190

 Score =  206 bits (526), Expect = 4e-68
 Identities = 60/162 (37%), Positives = 91/162 (56%), Gaps = 3/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVIDGETCLLDILDTAGQE 80

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F  I+ + +++K   D+  V  +LVGNKCDL +
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT 140

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V T++   LA++ G+ F+ETSA     V+ AF  ++REI
Sbjct: 141 -RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREI 181

>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* Length = 167

 Score =  203 bits (520), Expect = 2e-67
 Identities = 56/163 (34%), Positives = 91/163 (55%), Gaps = 3/163 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI   ++ Q +E+D ++   +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVDCQQCMLEILDTAGTE 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
           +F A+   Y +   G  +VY IT ++TF+ +    ++ L+      V  +LVGNKCDLE 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 136 IRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V  E+G++LA +     F+E+SA    NV   F  ++R+I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>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} Length = 187

 Score =  203 bits (519), Expect = 5e-67
 Identities = 51/180 (28%), Positives = 80/180 (44%), Gaps = 6/180 (3%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
            SS  E           + I+G    GKS L  ++    F       +   + ++   +D
Sbjct: 7   HSSGRENLYFQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSE-ETVD 65

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH---S 118
            + V  ++ DTA  +  R     Y   A   L+VY +  R +FDS S +L+ L  H   +
Sbjct: 66  HQPVHLRVMDTADLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKET 124

Query: 119 DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA-LDSTNVKSAFEIVIREI 177
             ++  +L+GNK D+   R V+  EG +LA   G  F E SA LD  +V+  F   +RE 
Sbjct: 125 QRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREA 184

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  203 bits (518), Expect = 7e-67
 Identities = 61/162 (37%), Positives = 90/162 (55%), Gaps = 3/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVIDGETCLLDILDTAGQE 63

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I  + +++K   D+  V  +LVGNKCDL S
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS 123

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R V T++ + LA + G+ F+ETSA     V  AF  ++REI
Sbjct: 124 -RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>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 Length = 199

 Score =  203 bits (518), Expect = 1e-66
 Identities = 45/165 (27%), Positives = 76/165 (46%), Gaps = 4/165 (2%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
             +++V+ G   VGKS+L+ R+ +  F      TI   ++   +  D      QI DT G
Sbjct: 7   NDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQV-ISCDKSVCTLQITDTTG 65

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK--THSDTTVARMLVGNKCD 132
             +F A+           ++V+ +T + + + +      +     S   +  MLVGNKCD
Sbjct: 66  SHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCD 125

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
               R V T E +++A+     FMETSA  + NVK  F+ ++   
Sbjct: 126 ETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLE 169

>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 Length = 196

 Score =  199 bits (509), Expect = 2e-65
 Identities = 57/171 (33%), Positives = 80/171 (46%), Gaps = 4/171 (2%)

Query: 9   GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQ 68
               +    K+ I G + VGKS L+ R+    F      T+   ++ Q   ID + V  +
Sbjct: 21  QSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQ-ATIDDEVVSME 79

Query: 69  IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELK-THSDTTVARMLV 127
           I DTAGQE        + R   G ++VYDIT R +F+ +    + L        V  +LV
Sbjct: 80  ILDTAGQEDT-IQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILV 138

Query: 128 GNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA-LDSTNVKSAFEIVIREI 177
           GNK DL+  R VSTEEG+ LA      F E SA     N+   F  + RE+
Sbjct: 139 GNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREV 189

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  194 bits (495), Expect = 1e-59
 Identities = 36/187 (19%), Positives = 68/187 (36%), Gaps = 12/187 (6%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           +  +  +G         K+ +IGD   GK++LL +     F+P    T G+   T+    
Sbjct: 26  IEEARSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPN 85

Query: 61  --------DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLD 112
                   + KE     WD  GQE   A    +   +   +++ D     T  +   WL 
Sbjct: 86  IKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDS---RTDSNKHYWLR 142

Query: 113 ELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI 172
            ++ +   +   ++V NK D     N+  ++      A    F   S  +   V+S  + 
Sbjct: 143 HIEKYGGKSP-VIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKS 201

Query: 173 VIREIYS 179
           +   +  
Sbjct: 202 LKSAVLH 208

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  179 bits (457), Expect = 1e-57
 Identities = 32/165 (19%), Positives = 68/165 (41%), Gaps = 11/165 (6%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+ I+G+ + GKS L+ RY    +    ++  G  F  + + +DG+     I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYV-QEESPEGGRF-KKEIVVDGQSYLLLIRDEGGPP 78

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDL-- 133
             +     +       + V+ +    +F ++  +   L +  +   V  +LVG +  +  
Sbjct: 79  ELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISA 133

Query: 134 ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
            + R +     + L+       + ET A    NV+  F+ V +++
Sbjct: 134 ANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKV 178

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  175 bits (447), Expect = 3e-56
 Identities = 37/179 (20%), Positives = 79/179 (44%), Gaps = 13/179 (7%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
             ++ ++GD+  GKS+L+ R+    +    + T   ++  + M +DG+     I + AG 
Sbjct: 7   ELRLGVLGDARSGKSSLIHRFLTGSYQVL-EKTESEQY-KKEMLVDGQTHLVLIREEAGA 64

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE---LKTHSDTTVARMLVG--NK 130
              +     +   A   + V+ +    +F ++SR   +   L+      +A  LVG  ++
Sbjct: 65  PDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDR 119

Query: 131 CDLESIRNVSTEEGKSL-AEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNS 188
               S R V     ++L A+ +   + ET A    NV   F+ V +++ +   ++ L +
Sbjct: 120 ISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQQLLA 178

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  163 bits (414), Expect = 4e-51
 Identities = 54/187 (28%), Positives = 91/187 (48%), Gaps = 6/187 (3%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
             +   G     +   KIV++GD AVGK+ LL  +++ E       T+   F    M+  
Sbjct: 9   DMNTGAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYK 67

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDT 120
            +E    +WDTAGQE +  +    Y  +   L+ + +  RT+FD+I ++W  E+K + D 
Sbjct: 68  NEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID- 126

Query: 121 TVARMLVGNKCDL--ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
           T   +LVG K DL  +   +V+ +EG  L +  G   ++E S++    +   FE  +  I
Sbjct: 127 TAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCI 186

Query: 178 YSNVSRK 184
           +SN    
Sbjct: 187 FSNKPVP 193

>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 Length = 182

 Score =  153 bits (389), Expect = 2e-47
 Identities = 52/181 (28%), Positives = 87/181 (48%), Gaps = 14/181 (7%)

Query: 9   GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQ 68
           G        K V +GD AVGK+ LL  Y  N F      T+   F    + ++G  V   
Sbjct: 1   GSMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSAN-VVVNGATVNLG 59

Query: 69  IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLV 127
           +WDTAGQE +  +    YRGA   ++ + +  + +++++  +W+ ELK ++   V  +LV
Sbjct: 60  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAP-GVPIVLV 118

Query: 128 GNKCDLESIRN----------VSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIRE 176
           G K DL   +           ++T +G+ L +  G   ++E S+    NVK  F+  IR 
Sbjct: 119 GTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRV 178

Query: 177 I 177
           +
Sbjct: 179 V 179

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  150 bits (381), Expect = 8e-46
 Identities = 50/187 (26%), Positives = 93/187 (49%), Gaps = 12/187 (6%)

Query: 8   GGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKA 67
           G         K V +GD AVGK+ +L  Y  N+F      T+  +  + ++ +DG+ V  
Sbjct: 1   GSHMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVAVDGQIVNL 59

Query: 68  QIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARML 126
            +WDTAGQE +  +    YRGA   ++ + +  + +++++  +W+ EL+  +   V  +L
Sbjct: 60  GLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP-NVPIVL 118

Query: 127 VGNKCDL--------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
           VG K DL        +    +++ +G+ L +  G   ++E S+    NVK+ F+  I+ +
Sbjct: 119 VGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVV 178

Query: 178 YSNVSRK 184
                RK
Sbjct: 179 LQPPRRK 185

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  147 bits (374), Expect = 7e-45
 Identities = 48/173 (27%), Positives = 82/173 (47%), Gaps = 16/173 (9%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+V++GD   GK++LL  +A   F      T+   +    +++ GK V   IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQVKGKPVHLHIWDTAGQD 93

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES 135
            +  +   +Y  A   L+ +D+T   +FD+I +RW  E+       V  ++VG K DL  
Sbjct: 94  DYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDLRK 152

Query: 136 IRN------------VSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
            ++            V+   G+ +A + G   ++E SA    NV + F+    
Sbjct: 153 DKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAE 205

>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* ... Length = 201

 Score =  146 bits (370), Expect = 2e-44
 Identities = 56/188 (29%), Positives = 88/188 (46%), Gaps = 16/188 (8%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
           SS     G        K+VI+GD A GK+ LL  +++++F      T+  E     +E+D
Sbjct: 11  SSGLVPRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVD 69

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDT 120
           GK+V+  +WDTAGQE +  +    Y      L+ + I    + ++I  +W  E+K     
Sbjct: 70  GKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP- 128

Query: 121 TVARMLVGNKCDLESIRN------------VSTEEGKSLAEAEGLF-FMETSALDSTNVK 167
            V  +LVGNK DL    +            V +EEG+ +A     F ++E SA     V+
Sbjct: 129 NVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVR 188

Query: 168 SAFEIVIR 175
             FE+  R
Sbjct: 189 EVFEMATR 196

>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 Length = 207

 Score =  144 bits (365), Expect = 1e-43
 Identities = 49/187 (26%), Positives = 85/187 (45%), Gaps = 16/187 (8%)

Query: 3   SSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG 62
               E          K+V++GD A GK+ LL  ++++EF      T+   +    +E+DG
Sbjct: 12  DLGTENLYFQSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEVDG 70

Query: 63  KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTT 121
           K+V+  +WDTAGQE +  +    Y      L+ + +    + ++I  +W+ E+K      
Sbjct: 71  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCP-N 129

Query: 122 VARMLVGNKCDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKS 168
           V  +LV NK DL                 V T++G+++A     + ++E SA     V+ 
Sbjct: 130 VPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVRE 189

Query: 169 AFEIVIR 175
            FE   R
Sbjct: 190 VFETATR 196

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  142 bits (359), Expect = 9e-43
 Identities = 50/197 (25%), Positives = 83/197 (42%), Gaps = 16/197 (8%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
                   GG E    K V++GD AVGK++L+  Y  N +      T   +  +  + +D
Sbjct: 6   EPGGRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVD 64

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDT 120
           G+ V+ Q+ DTAGQ+ F  +    Y      L+ + +   ++F ++  +W+ E++ H   
Sbjct: 65  GRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP- 123

Query: 121 TVARMLVGNKCDLESIRN------------VSTEEGKSLAEAEGLF-FMETSALDSTNVK 167
               +LVG + DL                 V  E  K LAE      ++E SAL   N+K
Sbjct: 124 KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLK 183

Query: 168 SAFEIVIREIYSNVSRK 184
             F+  I         +
Sbjct: 184 EVFDAAIVAGIQYSDTQ 200

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score =  141 bits (356), Expect = 3e-42
 Identities = 49/173 (28%), Positives = 85/173 (49%), Gaps = 16/173 (9%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N F      T+  +  + ++ +DGK V   +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDL-- 133
            +  +    Y      LI + +    +F+++ ++W  E++ H       +LVG K DL  
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRD 148

Query: 134 ----------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
                     + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 201

>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 ... Length = 186

 Score =  139 bits (351), Expect = 9e-42
 Identities = 50/178 (28%), Positives = 86/178 (48%), Gaps = 16/178 (8%)

Query: 12  GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD 71
           G     K V++GD AVGK+ LL  Y  N F P        +  + ++ +DGK V   +WD
Sbjct: 1   GSPQAIKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTVFDNYSANVMVDGKPVNLGLWD 59

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNK 130
           TAGQE +  +    Y     +LI + +    +F+++ ++W  E++ H       +LVG K
Sbjct: 60  TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTK 118

Query: 131 CDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIR 175
            DL            + +  ++  +G ++A+  G   ++E SAL    +K+ F+  IR
Sbjct: 119 LDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 176

>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* Length = 184

 Score =  138 bits (349), Expect = 2e-41
 Identities = 52/181 (28%), Positives = 85/181 (46%), Gaps = 17/181 (9%)

Query: 10  GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQI 69
           G  +    KIV++GDS  GK+ LL  +A++ F  +   T+   +     EID + ++  +
Sbjct: 1   GSNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS-FEIDTQRIELSL 59

Query: 70  WDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVG 128
           WDT+G   +  V    Y  +   LI +DI+R  T DS+  +W  E++         +LVG
Sbjct: 60  WDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVG 118

Query: 129 NKCDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTN-VKSAFEIVI 174
            K DL                 VS ++G ++A+  G   ++E SAL S N V+  F +  
Sbjct: 119 CKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVAT 178

Query: 175 R 175
            
Sbjct: 179 L 179

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score =  137 bits (346), Expect = 1e-40
 Identities = 51/181 (28%), Positives = 84/181 (46%), Gaps = 17/181 (9%)

Query: 10  GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQI 69
              +    KIV++GDS  GK+ LL  +A++ F  +   T+   +     EID + ++  +
Sbjct: 22  DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS-FEIDTQRIELSL 80

Query: 70  WDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVG 128
           WDT+G   +  V    Y  +   LI +DI+R  T DS+  +W  E++         +LVG
Sbjct: 81  WDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVG 139

Query: 129 NKCDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTN-VKSAFEIVI 174
            K DL                 VS ++G ++A+  G   ++E SAL S N V+  F +  
Sbjct: 140 CKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVAT 199

Query: 175 R 175
            
Sbjct: 200 L 200

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score =  136 bits (344), Expect = 1e-40
 Identities = 49/188 (26%), Positives = 85/188 (45%), Gaps = 16/188 (8%)

Query: 2   SSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID 61
            +       G    + K V++GD AVGK+ LL  YA + F      T+  +    S+ + 
Sbjct: 4   GAGRSSMAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVG 62

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDT 120
           GK+    ++DTAGQE +  +    Y      LI + +    +F ++   W+ ELK ++  
Sbjct: 63  GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP- 121

Query: 121 TVARMLVGNKCDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVK 167
            V  +L+G + DL               + +  E+G+ LA+  G   ++E SAL    +K
Sbjct: 122 NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLK 181

Query: 168 SAFEIVIR 175
           + F+  I 
Sbjct: 182 TVFDEAII 189

>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* Length = 214

 Score =  136 bits (343), Expect = 4e-40
 Identities = 43/199 (21%), Positives = 83/199 (41%), Gaps = 17/199 (8%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
            +   +           K+V++GD   GK+ +L   A++ +      T+   +    +E 
Sbjct: 12  ENLYFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTAC-LET 70

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSD 119
           + + V+  +WDT+G   +  V    Y  +   L+ +DI+R  T DS   +W  E+  +  
Sbjct: 71  EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP 130

Query: 120 TTVARMLVGNKCDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDS-TN 165
            +   +L+G K DL            +    +S E+G ++A+  G   ++E SA  S  +
Sbjct: 131 -STRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKS 189

Query: 166 VKSAFEIVIREIYSNVSRK 184
           + S F        +  S  
Sbjct: 190 IHSIFRTASMLCLNKPSPL 208

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score =  111 bits (279), Expect = 2e-30
 Identities = 42/220 (19%), Positives = 70/220 (31%), Gaps = 66/220 (30%)

Query: 23  GDSAVGKSNLLSRYAR---NEFNPHSKATIG-VEF--------------QTQSMEIDGKE 64
           G   +GKS L +R+ R   +EF+    + +   +F              +      D  E
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 65  VKAQIW-------DTAGQERFRAVTSAYYRGAV--------------------------- 90
            K  I        D   Q         Y + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 91  ----------GALIVYDITR--RTTFDSISRWLDELKTHSDTTVARM-LVGNKCDLESIR 137
                     G L+  D++R     FD   +++  L      T   + +V  KCD    R
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214

Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            +      +L++ + L  +ETSA  + NV  AF  +++ I
Sbjct: 215 YIRDAHTFALSK-KNLQVVETSARSNVNVDLAFSTLVQLI 253

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score =  105 bits (263), Expect = 2e-27
 Identities = 50/189 (26%), Positives = 85/189 (44%), Gaps = 16/189 (8%)

Query: 1   MSSSDEEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI 60
           +     E      + L K V++GD AVGK+ LL  Y  N F P        +  + ++ +
Sbjct: 140 LIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTVFDNYSANVMV 198

Query: 61  DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSD 119
           DGK V   +WDTAG E +  +    Y      LI + +    +F  + ++W  E++ H  
Sbjct: 199 DGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC- 257

Query: 120 TTVARMLVGNKCDL------------ESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNV 166
                +LVG K DL            + +  ++  +G ++A+  G   ++E SAL    +
Sbjct: 258 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL 317

Query: 167 KSAFEIVIR 175
           K+ F+  IR
Sbjct: 318 KTVFDEAIR 326

>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* Length = 198

 Score = 88.6 bits (220), Expect = 4e-22
 Identities = 34/188 (18%), Positives = 63/188 (33%), Gaps = 19/188 (10%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA-----------TIGVEFQTQSME-ID 61
           E  FKIV  G    GK+  L ++  ++     K            T+  +F    +  + 
Sbjct: 12  EINFKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVK 70

Query: 62  GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTF---DSISRWLDELKTH- 117
           G + +  ++   GQ  + A      RG  G + V D          +S+    + L  + 
Sbjct: 71  GFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG 130

Query: 118 SDTTVARMLVG-NKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
                  +++  NK DL     V       +        +E  A +   V    + V R 
Sbjct: 131 LTLDDVPIVIQVNKRDLPDALPVE-MVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRL 189

Query: 177 IYSNVSRK 184
           + + V+  
Sbjct: 190 VLARVAGG 197

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 65.8 bits (160), Expect = 4e-13
 Identities = 37/185 (20%), Positives = 70/185 (37%), Gaps = 25/185 (13%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHS----KATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           K++++G S  GKS++ S    N ++        ATI VE            +   +WD  
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSN-YSAFDTRRLGATIDVEHSHLRF---LGNMTLNLWDCG 60

Query: 74  GQERFRAVT-----SAYYRGAVGALIVYDITRRTTFDSISRWLDELKT-HSDTTVARMLV 127
           GQ+ F            ++     + V+D+        I  +   LK     +  A++ V
Sbjct: 61  GQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFV 120

Query: 128 -GNKCDL-------ESIRNVSTEEGKSLAEA--EGLFFMETSALDSTNVKSAFEIVIREI 177
             +K DL       E  + +     ++ +E     L    TS  D + +  A+  ++  +
Sbjct: 121 LLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDES-LYKAWSQIVCSL 179

Query: 178 YSNVS 182
             N+S
Sbjct: 180 IPNMS 184

>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* Length = 188

 Score = 63.7 bits (156), Expect = 6e-13
 Identities = 38/174 (21%), Positives = 67/174 (38%), Gaps = 20/174 (11%)

Query: 17  FKIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
            ++ ++G   + GK+  ++  A  +FN     T+G  F  + +      V  ++WD  GQ
Sbjct: 23  MELTLVGLQYS-GKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQ 77

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
            RFR++   Y RG    + + D   +   ++    L  L          +LV GNK DL 
Sbjct: 78  PRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLP 137

Query: 135 SIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREIYSN 180
               +  +E   L E   L             S  +  N+    + +I+   S 
Sbjct: 138 G--ALDEKE---LIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSKSR 186

>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* Length = 196

 Score = 63.8 bits (155), Expect = 8e-13
 Identities = 35/179 (19%), Positives = 65/179 (36%), Gaps = 24/179 (13%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKAQIWDTAGQ 75
           +I+++G    GKS++      ++ +P+    +    +     +      V  QIWD  GQ
Sbjct: 22  RILLMGLRRSGKSSIQKVVF-HKMSPNETLFLESTNKIYKDDISNSS-FVNFQIWDFPGQ 79

Query: 76  ERFRAVTS---AYYRGAVGALIVYDITRRTT--FDSISRWLDELKTHSDTTVARMLV-GN 129
             F   T      +RG    + V D           +   + +    +        V  +
Sbjct: 80  MDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPD--MNFEVFIH 137

Query: 130 KCDL-------ESIRNVSTEEGKSLAEA----EGLFFMETSALDSTNVKSAFEIVIREI 177
           K D        E+ R++       LA+A      L F  TS  D + +  AF  V++++
Sbjct: 138 KVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDHS-IFEAFSKVVQKL 195

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 62.3 bits (152), Expect = 2e-12
 Identities = 38/177 (21%), Positives = 72/177 (40%), Gaps = 19/177 (10%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K++I+G    GK+ +L +++ NE   H+  TIG     + + I+    +  +WD  GQE
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIG--SNVEEIVINN--TRFLMWDIGGQE 71

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
             R+  + YY      ++V D T R         L ++  H D   A +L+  NK D++ 
Sbjct: 72  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 131

Query: 136 IRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
              ++  E   +++   L              AL    +    E ++  +   +   
Sbjct: 132 --CMTVAE---ISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRLEHH 183

>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* Length = 171

 Score = 61.4 bits (150), Expect = 3e-12
 Identities = 42/172 (24%), Positives = 67/172 (38%), Gaps = 23/172 (13%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKAQIWDTAG 74
            +I+I+G    GK+ +L R    E    +  TIG  VE       +  K +K Q+WD  G
Sbjct: 8   MRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNVE------TVTYKNLKFQVWDLGG 60

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
               R     YY      + V D   R         L  +    +   A ++V  NK D+
Sbjct: 61  LTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDM 120

Query: 134 ESIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREI 177
           E    +++ E   +A + GL           +TSA   T +  A E ++  +
Sbjct: 121 EQ--AMTSSE---MANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 167

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 61.5 bits (150), Expect = 5e-12
 Identities = 34/173 (19%), Positives = 68/173 (39%), Gaps = 25/173 (14%)

Query: 17  FKIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKAQIWDTA 73
            +++++G D+A GK+++L R    +    +  T+G  +E       +  K +  ++WD  
Sbjct: 23  IRVLMLGLDNA-GKTSILYRLHLGDVV-TTVPTVGVNLE------TLQYKNISFEVWDLG 74

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCD 132
           GQ   R     Y+      + V D T R         L  L    +   + +L+  NK D
Sbjct: 75  GQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQD 134

Query: 133 LESIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREI 177
           L      S  E   +AE  G+          +++S+     +    + ++  +
Sbjct: 135 LPD--AASEAE---IAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERL 182

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 61.1 bits (149), Expect = 6e-12
 Identities = 41/175 (23%), Positives = 67/175 (38%), Gaps = 23/175 (13%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKAQIWDTAG 74
            +I+I+G    GK+ +L R    E    +K TIG  VE       +  K +K  +WD  G
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVE------TLSYKNLKLNVWDLGG 71

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
           Q   R     YY      + V D T +    + S+ L  +    +   A +LV  NK D 
Sbjct: 72  QTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ 131

Query: 134 ESIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREIYSN 180
                +S  E   +++   L          + +SA+    +    + +I  I   
Sbjct: 132 PG--ALSASE---VSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 181

>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* Length = 186

 Score = 60.3 bits (147), Expect = 1e-11
 Identities = 35/176 (19%), Positives = 68/176 (38%), Gaps = 23/176 (13%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKAQIWDTAG 74
            +++++G    GK+ +L ++   + +     T+G  ++       ++ +  K  IWD  G
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNIK------TLEHRGFKLNIWDVGG 71

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDL 133
           Q+  R+    Y+    G + V D   R       R L  L        A +L+  NK DL
Sbjct: 72  QKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL 131

Query: 134 ESIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREIYSNV 181
               + +      + EA  L             SA+   ++    + ++ +I S V
Sbjct: 132 PGALSCNA-----IQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>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* Length = 192

 Score = 60.0 bits (146), Expect = 1e-11
 Identities = 38/170 (22%), Positives = 71/170 (41%), Gaps = 19/170 (11%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    E    +  TIG  F  +++E   K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNICFTVWDVGGQD 84

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   Y++   G + V D   R      +  L ++    +   A +LV  NK D+ +
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN 144

Query: 136 IRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREI 177
              +   E   L +  GL        +   T A   T +    + +  E+
Sbjct: 145 --AMPVSE---LTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHEL 189

>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* ... Length = 164

 Score = 58.7 bits (143), Expect = 3e-11
 Identities = 37/173 (21%), Positives = 73/173 (42%), Gaps = 21/173 (12%)

Query: 18  KIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +I+++G D+A GK+ +L +    E    +  TIG  F  +++E   K +   +WD  GQ+
Sbjct: 2   RILMVGLDAA-GKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNISFTVWDVGGQD 55

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLES 135
           + R +   Y++   G + V D   R   +     L  +    +   A +LV  NK DL +
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115

Query: 136 IRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREIYSN 180
              ++  E   + +  GL        +   T A     +    + +  ++ + 
Sbjct: 116 --AMNAAE---ITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 163

>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* Length = 181

 Score = 58.4 bits (142), Expect = 6e-11
 Identities = 43/167 (25%), Positives = 71/167 (42%), Gaps = 25/167 (14%)

Query: 17  FKIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIG--VEFQTQSMEIDGKEVKAQIWDTA 73
            K++I+G D+A GK+ +L +++ NE   H+  TIG  VE      EI     +  +WD  
Sbjct: 22  HKVIIVGLDNA-GKTTILYQFSMNEVV-HTSPTIGSNVE------EIVINNTRFLMWDIG 73

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCD 132
           GQE  R+  + YY      ++V D T R         L ++  H D   A +L+  NK D
Sbjct: 74  GQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQD 133

Query: 133 LESIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFE 171
           ++    ++  E   +++   L              AL    +    E
Sbjct: 134 VKE--CMTVAE---ISQFLKLTSIKDHQWHIQACCALTGEGLCQGLE 175

>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* Length = 181

 Score = 57.6 bits (140), Expect = 1e-10
 Identities = 43/174 (24%), Positives = 71/174 (40%), Gaps = 21/174 (12%)

Query: 17  FKIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
            +I+++G D+A GK+ LL + A  + + H   T G  F  +S++  G   K  +WD  GQ
Sbjct: 17  VRILLLGLDNA-GKTTLLKQLASEDIS-HITPTQG--FNIKSVQSQG--FKLNVWDIGGQ 70

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
            + R    +Y+      + V D   R  F+   + L EL      +   +L+  NK DL 
Sbjct: 71  RKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLL 130

Query: 135 SIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREIYSN 180
           +       E   +AE   L             SAL    V+     V + + + 
Sbjct: 131 TA--APASE---IAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAK 179

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 57.3 bits (139), Expect = 1e-10
 Identities = 33/179 (18%), Positives = 71/179 (39%), Gaps = 27/179 (15%)

Query: 17  FKIVIIG-DSAVGKSNLLSRYARNEFNP-HSKATIG--VEFQTQSMEIDGKEVKAQIWDT 72
             ++ +G D++ GK+ ++++   +     +   TIG  +E      +     +   ++D 
Sbjct: 22  VHVLCLGLDNS-GKTTIINKLKPSNAQSQNILPTIGFSIE------KFKSSSLSFTVFDM 74

Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR--MLV-GN 129
           +GQ R+R +   YY+     + V D + R         LD L  H D    R  +L   N
Sbjct: 75  SGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFAN 134

Query: 130 KCDLESIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREIYSN 180
           K DL     V++ +   +++   L            + A+    ++   + +  +I + 
Sbjct: 135 KMDLRD--AVTSVK---VSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQTV 188

>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* Length = 198

 Score = 53.4 bits (129), Expect = 4e-09
 Identities = 29/119 (24%), Positives = 45/119 (37%), Gaps = 8/119 (6%)

Query: 18  KIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           K+V +G D+A GK+ LL     +    H   T+     ++ + I G  +    +D  G  
Sbjct: 27  KLVFLGLDNA-GKTTLLHMLKDDRLGQHV-PTLH--PTSEELTIAG--MTFTTFDLGGHI 80

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R V   Y     G + + D             LD L T        +L+ GNK D  
Sbjct: 81  QARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRP 139

>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* Length = 190

 Score = 52.2 bits (126), Expect = 9e-09
 Identities = 26/119 (21%), Positives = 46/119 (38%), Gaps = 8/119 (6%)

Query: 18  KIVIIG-DSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           K++ +G D+A GK+ LL     +        T      ++ + I    +K   +D  G  
Sbjct: 25  KLLFLGLDNA-GKTTLLHMLKNDRLATLQ-PTWH--PTSEELAIGN--IKFTTFDLGGHI 78

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCDLE 134
           + R +   Y+    G + + D      FD     LD L   ++      ++ GNK D  
Sbjct: 79  QARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAP 137

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 51.3 bits (123), Expect = 2e-08
 Identities = 23/136 (16%), Positives = 51/136 (37%), Gaps = 17/136 (12%)

Query: 8   GGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG-VEFQTQSMEIDGKEVK 66
           G GGG  Y   I+I G    GK++LL+    +   P    +   +         D     
Sbjct: 40  GSGGGGSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTV-VSQEPLS------AADYDGSG 92

Query: 67  AQIWDTAGQERFRAVTSAYYRGAVGAL--IVYDI---TRRTTFDSISRWLDELKTHSDTT 121
             + D  G  + R   S Y +     +  +++ +          + + +L ++ + ++++
Sbjct: 93  VTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESS 152

Query: 122 VAR----MLVGNKCDL 133
                  ++  NK +L
Sbjct: 153 CENGIDILIACNKSEL 168

>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 Length = 218

 Score = 47.8 bits (114), Expect = 4e-07
 Identities = 20/124 (16%), Positives = 46/124 (37%), Gaps = 15/124 (12%)

Query: 19  IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF 78
           I+I G    GK++LL+    +   P       V  Q      D       + D  G  + 
Sbjct: 15  IIIAGPQNSGKTSLLTLLTTDSVRPT------VVSQEPLSAADYDGSGVTLVDFPGHVKL 68

Query: 79  RAVTSAYYRGAVGAL--IVYDI---TRRTTFDSISRWLDELKTHSDTTVAR----MLVGN 129
           R   S Y +     +  +++ +          + + +L ++ + ++++       ++  N
Sbjct: 69  RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACN 128

Query: 130 KCDL 133
           K +L
Sbjct: 129 KSEL 132

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 47.6 bits (113), Expect = 9e-07
 Identities = 36/173 (20%), Positives = 71/173 (41%), Gaps = 19/173 (10%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +   +I+++G  A GK+ +L +    E    +  TIG  F  +++E   K +   +WD  
Sbjct: 163 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNISFTVWDVG 217

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV-GNKCD 132
           GQ++ R +   Y++   G + V D   R   +     L  +    +   A +LV  NK D
Sbjct: 218 GQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQD 277

Query: 133 LESIRNVSTEEGKSLAEAEGL--------FFMETSALDSTNVKSAFEIVIREI 177
           L +   ++  E   + +  GL        +   T A     +    + +  ++
Sbjct: 278 LPN--AMNAAE---ITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 325

>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 Length = 214

 Score = 44.7 bits (106), Expect = 5e-06
 Identities = 19/122 (15%), Positives = 46/122 (37%), Gaps = 9/122 (7%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQE 76
            ++ +G    GK+ L  R    ++      +I     +   ++ + +     + D  G E
Sbjct: 9   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSIT--DSSAIYKVNNNRGNSLTLIDLPGHE 65

Query: 77  RFRAVTSAYYRGAVGALI-VYDIT-RRTTFDSISRWLDELKTHSDTT--VARMLV-GNKC 131
             R      ++ +  A++ V D    +     ++ +L ++   S        +L+  NK 
Sbjct: 66  SLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQ 125

Query: 132 DL 133
           D+
Sbjct: 126 DI 127

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	222
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.98
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.98
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.98
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.98
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.98
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.97
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.97
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.97
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.97
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.97
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.97
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.97
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.97
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.96
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.96
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.96
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.96
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.96
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.96
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.96
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.96
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.96
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.96
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.96
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.96
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.96
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.92
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.95
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.95
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.94
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.94
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.94
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.94
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.94
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.93
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.93
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.93
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.93
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.93
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.93
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.93
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.92
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.92
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.92
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.92
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.91
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.91
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.91
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.9
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.9
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.89
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.89
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.88
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.88
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.88
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.87
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.87
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.87
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.87
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.86
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.86
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.86
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.86
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.85
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.85
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.85
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.85
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.85
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.85
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.85
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.84
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.84
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.84
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.84
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.84
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.84
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.83
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.83
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.83
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.83
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.82
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.82
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.82
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.82
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.82
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.82
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.82
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.82
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.81
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.81
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.81
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.8
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.8
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.8
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.79
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.79
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.78
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.78
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.77
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.76
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.75
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.75
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.75
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.74
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.74
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.73
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.73
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.72
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.72
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.72
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.71
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.69
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.69
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.69
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.69
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.64
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.63
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.62
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.6
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.6
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.57
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.55
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.55
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.54
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.54
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.52
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.48
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.46
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.43
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.41
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.4
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.4
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.39
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.31
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.28
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.28
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.15
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.92
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.91
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.9
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.87
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.81
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.76
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.73
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.73
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.73
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.43
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.42
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.29
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.25
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.23
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.19
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.14
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.13
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.1
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.1
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.01
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.83
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.8
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.59
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.41
2xxa_A	433	Signal recognition particle protein; protein trans	97.4
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.32
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.29
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.19
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.18
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.18
3co5_A	143	Putative two-component system transcriptional RES	97.18
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.17
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.17
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.16
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.15
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.14
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.13
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.09
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.08
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.08
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.07
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.07
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.02
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.01
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.01
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.01
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.01
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.96
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.96
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.95
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.93
1g6h_A	257	High-affinity branched-chain amino acid transport	96.93
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.92
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.92
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.91
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.9
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.9
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.89
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.89
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.88
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.88
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.88
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.88
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.88
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.87
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.87
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.87
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.86
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.86
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.84
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.84
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.83
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.83
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.82
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.82
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.81
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.81
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.8
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.79
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.79
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.78
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.78
3cwq_A	209	Para family chromosome partitioning protein; alpha	96.77
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.77
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.75
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.73
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.73
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.71
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.7
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.69
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.69
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.68
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.67
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.67
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.67
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.67
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.66
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.66
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.64
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.63
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.62
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.61
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.61
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.59
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.59
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.59
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.59
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.59
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.58
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.58
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.56
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.56
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.56
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.55
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.54
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.54
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.53
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.53
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.51
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.51
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.5
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.5
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.5
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.49
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.46
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.46
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.45
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.43
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.43
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.42
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.41
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.41
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.4
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.37
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.37
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.37
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.36
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.36
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.35
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.34
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.34
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.34
1via_A	175	Shikimate kinase; structural genomics, transferase	96.34
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.33
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.33
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.32
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.32
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.32
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.31
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.31
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.31
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.3
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.3
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.29
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.28
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.28
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.26
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.26
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.25
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.24
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.24
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.22
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.21
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.21
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.21
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.2
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.19
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.18
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.16
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.16
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.12
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.12
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.11
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.09
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.08
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.08
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.08
2og2_A	359	Putative signal recognition particle receptor; nuc	96.08
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.06
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.06
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.06
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.05
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.05
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.04
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.01
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.01
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.0
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.0
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.0
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.99
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.99
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.98
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.97
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.96
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.96
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.94
3bos_A	242	Putative DNA replication factor; P-loop containing	95.92
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.92
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.91
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.9
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.89
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.89
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	95.89
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.88
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.88
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	95.87
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.87
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.86
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.86
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.85
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.84
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.82
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.79
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.78
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.78
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.77
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.77
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.76
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.74
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.73
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.73
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.7
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.68
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.65
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.63
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.63
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.63
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.63
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.59
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.59
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.58
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.58
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.57
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.57
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.57
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.55
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.53
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.52
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.49
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.47
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.47
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.46
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.44
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.44
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.44
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.43
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.42
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.38
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.38
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.35
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.26
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.23
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.23
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.23
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.22
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.21
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.18
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.17
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.16
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.15
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.13
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.09
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.08
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.06
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	95.05
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.04
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.03
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.03
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.01
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.0
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.0
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.98
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.97
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	94.92
3uc9_A	233	Increased recombination centers protein 6; rossman	94.89
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.89
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	94.87
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	94.83
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	94.82
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.81
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.8
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.8
2qgz_A	308	Helicase loader, putative primosome component; str	94.79
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.76
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	94.74
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	94.74
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.7
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	94.69

>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=100.00  E-value=8.5e-42  Score=262.94  Aligned_cols=171  Identities=38%  Similarity=0.681  Sum_probs=146.6

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ...+.+.+||+|+|++|||||||+++|..+.+...+.+|.+.++....+..++..+.++||||+|++.+..++..+++.+
T Consensus         7 ~~~P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a   86 (216)
T 4dkx_A            7 FGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDS   86 (216)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTC
T ss_pred             CCCCCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccc
Confidence            34556779999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      +++|+|||++++.+|+.+..|+..+.......+|++|||||+|+.+.+.+..+++.+++..++++|++|||++|.||+++
T Consensus        87 ~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~  166 (216)
T 4dkx_A           87 AAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQL  166 (216)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHH
T ss_pred             cEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHH
Confidence            99999999999999999999999998887788999999999999988999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          170 FEIVIREIYSN  180 (222)
Q Consensus       170 ~~~i~~~~~~~  180 (222)
                      |..|++.+...
T Consensus       167 F~~i~~~i~~~  177 (216)
T 4dkx_A          167 FRRVAAALPGM  177 (216)
T ss_dssp             HHHHHHHC---
T ss_pred             HHHHHHHHHhh
Confidence            99999877643

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=4.1e-36  Score=232.45  Aligned_cols=174  Identities=60%  Similarity=0.956  Sum_probs=148.1

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ...++.++|+|+|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus         8 ~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   87 (223)
T 3cpj_B            8 YDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAV   87 (223)
T ss_dssp             --CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCC
T ss_pred             CCCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCC
Confidence            34577899999999999999999999999988888888888888888888998899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      ++|+|||++++.+|+.+..|+..+.......+|++||+||+|+.+.+.+..+++..++...+++++++||+++.||+++|
T Consensus        88 ~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  167 (223)
T 3cpj_B           88 GALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAF  167 (223)
T ss_dssp             EEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHH
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999988766778999999999998777888888999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q 040481          171 EIVIREIYSNVSRK  184 (222)
Q Consensus       171 ~~i~~~~~~~~~~~  184 (222)
                      ++|++.+.+.....
T Consensus       168 ~~l~~~i~~~~~~~  181 (223)
T 3cpj_B          168 EELINTIYQKVSKH  181 (223)
T ss_dssp             HHHHHHHTTCC---
T ss_pred             HHHHHHHHHHhhhc
Confidence            99999888765543

>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=100.00  E-value=7.4e-35  Score=222.49  Aligned_cols=172  Identities=49%  Similarity=0.853  Sum_probs=158.3

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .+..++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~v   84 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   84 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEE
Confidence            45679999999999999999999999998888888888888888888899999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+|+.+..|+..+........|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|.+
T Consensus        85 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  164 (206)
T 2bcg_Y           85 IIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLT  164 (206)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998877678999999999999887788888899999999999999999999999999999


Q ss_pred             HHHHHHHHhhhh
Q 040481          173 VIREIYSNVSRK  184 (222)
Q Consensus       173 i~~~~~~~~~~~  184 (222)
                      +.+.+.+.....
T Consensus       165 l~~~i~~~~~~~  176 (206)
T 2bcg_Y          165 MARQIKESMSQQ  176 (206)
T ss_dssp             HHHHHHHHCCHH
T ss_pred             HHHHHHHHHhhc
Confidence            999988775543

>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=100.00  E-value=2.8e-34  Score=218.89  Aligned_cols=173  Identities=34%  Similarity=0.520  Sum_probs=151.2

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ..+....++|+|+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+
T Consensus         8 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   86 (206)
T 2bov_A            8 GQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSG   86 (206)
T ss_dssp             ---CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHC
T ss_pred             CCCCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhC
Confidence            34556679999999999999999999999888777777766554 45667788888999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      |++|+|||++++.+|+.+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|+++
T Consensus        87 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  166 (206)
T 2bov_A           87 EGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDK  166 (206)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHH
Confidence            999999999999999999999988877653 5789999999999988778888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhh
Q 040481          169 AFEIVIREIYSNVSR  183 (222)
Q Consensus       169 ~~~~i~~~~~~~~~~  183 (222)
                      +|.+|++.+.++...
T Consensus       167 l~~~l~~~i~~~~~~  181 (206)
T 2bov_A          167 VFFDLMREIRARKME  181 (206)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccc
Confidence            999999998876543

>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=100.00  E-value=8.6e-34  Score=216.22  Aligned_cols=171  Identities=42%  Similarity=0.751  Sum_probs=157.6

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..+..++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        22 ~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~  101 (201)
T 2ew1_A           22 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANA  101 (201)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSE
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCE
Confidence            45678999999999999999999999998888888888889888888899999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+|+.+..|+..+.......+|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|.
T Consensus       102 ~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~  181 (201)
T 2ew1_A          102 LILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFL  181 (201)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887777889999999999987778888889999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 040481          172 IVIREIYSNVS  182 (222)
Q Consensus       172 ~i~~~~~~~~~  182 (222)
                      ++++.+.+...
T Consensus       182 ~l~~~i~~~~~  192 (201)
T 2ew1_A          182 DLACRLISEAR  192 (201)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHh
Confidence            99998887643

>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=100.00  E-value=1.6e-33  Score=212.75  Aligned_cols=174  Identities=52%  Similarity=0.869  Sum_probs=154.6

Q ss_pred             CCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcC
Q 040481            9 GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG   88 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   88 (222)
                      ......+.+||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.
T Consensus        14 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   93 (191)
T 2a5j_A           14 LVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRG   93 (191)
T ss_dssp             CCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTT
T ss_pred             cccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhcc
Confidence            34455778999999999999999999999998887778888888888888889989999999999999999999999999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      +|++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|+++
T Consensus        94 ~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (191)
T 2a5j_A           94 AAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEE  173 (191)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            99999999999999999999999999887667899999999999987778888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 040481          169 AFEIVIREIYSNVS  182 (222)
Q Consensus       169 ~~~~i~~~~~~~~~  182 (222)
                      +|.+|++.+.++..
T Consensus       174 l~~~l~~~i~~~~~  187 (191)
T 2a5j_A          174 AFINTAKEIYRKIQ  187 (191)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998887643

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=2.3e-33  Score=212.20  Aligned_cols=171  Identities=46%  Similarity=0.830  Sum_probs=159.1

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..+..++|+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        12 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (196)
T 3tkl_A           12 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHG   91 (196)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSE
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCE
Confidence            44678999999999999999999999999888888898999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+|+.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|.
T Consensus        92 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~  171 (196)
T 3tkl_A           92 IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFM  171 (196)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999888777899999999999988888888999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 040481          172 IVIREIYSNVS  182 (222)
Q Consensus       172 ~i~~~~~~~~~  182 (222)
                      +|++.+.+...
T Consensus       172 ~l~~~i~~~~~  182 (196)
T 3tkl_A          172 TMAAEIKKRMG  182 (196)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHhc
Confidence            99998887654

>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=100.00  E-value=2.4e-33  Score=213.54  Aligned_cols=174  Identities=44%  Similarity=0.791  Sum_probs=159.0

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..++.++|+++|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||.+.+...+..+++.+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMG   83 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSE
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCE
Confidence            45678999999999999999999999999888888888888888888889989999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+|+.+..|+..+........|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|+
T Consensus        84 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (203)
T 1zbd_A           84 FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE  163 (203)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887667789999999999988778888899999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhc
Q 040481          172 IVIREIYSNVSRKV  185 (222)
Q Consensus       172 ~i~~~~~~~~~~~~  185 (222)
                      +|++.+.+......
T Consensus       164 ~l~~~i~~~~~~~~  177 (203)
T 1zbd_A          164 RLVDVICEKMSESL  177 (203)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999887765543

>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=100.00  E-value=3e-34  Score=214.95  Aligned_cols=172  Identities=47%  Similarity=0.878  Sum_probs=128.3

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .++.++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (183)
T 2fu5_C            5 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   84 (183)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEE
Confidence            35679999999999999999999998887777778888888888888899889999999999999998899999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+|+.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|.+
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  164 (183)
T 2fu5_C           85 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFT  164 (183)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998876677899999999999877788888999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhh
Q 040481          173 VIREIYSNVSRK  184 (222)
Q Consensus       173 i~~~~~~~~~~~  184 (222)
                      |++.+.+...+.
T Consensus       165 l~~~i~~~~~~~  176 (183)
T 2fu5_C          165 LARDIKAKMDKN  176 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcc
Confidence            999988765543

>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=100.00  E-value=2.7e-33  Score=211.60  Aligned_cols=172  Identities=58%  Similarity=0.955  Sum_probs=157.6

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ...++.++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||.+.+...+..+++.+|
T Consensus        20 ~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   99 (193)
T 2oil_A           20 EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAV   99 (193)
T ss_dssp             CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCC
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCC
Confidence            44567799999999999999999999999988888888888888888888889999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      ++|+|||++++.++..+..|+..+........|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|
T Consensus       100 ~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  179 (193)
T 2oil_A          100 GALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAF  179 (193)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999988766789999999999998777788888999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q 040481          171 EIVIREIYSNVS  182 (222)
Q Consensus       171 ~~i~~~~~~~~~  182 (222)
                      .+|++.+.++..
T Consensus       180 ~~l~~~i~~~~~  191 (193)
T 2oil_A          180 ETVLKEIFAKVS  191 (193)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999998887654

>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=100.00  E-value=2.4e-33  Score=210.45  Aligned_cols=171  Identities=44%  Similarity=0.780  Sum_probs=157.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .++.++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         7 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   86 (186)
T 2bme_A            7 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   86 (186)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEE
Confidence            46779999999999999999999999998888888888888888888899889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++
T Consensus        87 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  166 (186)
T 2bme_A           87 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQ  166 (186)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            99999999999999999999888776678999999999999877788888899999999999999999999999999999


Q ss_pred             HHHHHHHHhhh
Q 040481          173 VIREIYSNVSR  183 (222)
Q Consensus       173 i~~~~~~~~~~  183 (222)
                      +++.+.+....
T Consensus       167 l~~~~~~~~~~  177 (186)
T 2bme_A          167 CARKILNKIES  177 (186)
T ss_dssp             HHHHHHHHHHS
T ss_pred             HHHHHHHHhhh
Confidence            99998876543

>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=100.00  E-value=2e-33  Score=209.27  Aligned_cols=168  Identities=50%  Similarity=0.861  Sum_probs=154.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..++.++|+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        11 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   90 (179)
T 1z0f_A           11 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   90 (179)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCE
Confidence            45678999999999999999999999998887778888888888888889989999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..+++.+++...+++++++||++|.|++++|+
T Consensus        91 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  170 (179)
T 1z0f_A           91 ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFL  170 (179)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887777899999999999987778888899999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 040481          172 IVIREIYS  179 (222)
Q Consensus       172 ~i~~~~~~  179 (222)
                      ++++.+.+
T Consensus       171 ~l~~~i~~  178 (179)
T 1z0f_A          171 EAAKKIYQ  178 (179)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHhh
Confidence            99987753

>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=100.00  E-value=1.5e-33  Score=214.74  Aligned_cols=171  Identities=44%  Similarity=0.788  Sum_probs=147.3

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ...+..++|+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus        24 ~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  103 (201)
T 2hup_A           24 EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSAN  103 (201)
T ss_dssp             --CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCC
Confidence            34566799999999999999999999999887777788888888888888988899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|||++++.+|+.+..|+..+.......+|+++|+||+|+.+.+.+..+++.+++...++ +++++||++|.||+++
T Consensus       104 ~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l  183 (201)
T 2hup_A          104 GAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEA  183 (201)
T ss_dssp             EEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999999999887767789999999999987778888899999999999 9999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 040481          170 FEIVIREIYSNV  181 (222)
Q Consensus       170 ~~~i~~~~~~~~  181 (222)
                      |.+|++.+.+..
T Consensus       184 ~~~l~~~i~~~~  195 (201)
T 2hup_A          184 FLRVATELIMRH  195 (201)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999887653

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=2.3e-33  Score=209.30  Aligned_cols=173  Identities=44%  Similarity=0.744  Sum_probs=155.6

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..++.++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   84 (181)
T 3tw8_B            5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHG   84 (181)
T ss_dssp             -CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCE
Confidence            45678999999999999999999999998888888888989998999999998999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+++.+..|+..+.... ...|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (181)
T 3tw8_B           85 VIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFN  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            999999999999999999999987755 4689999999999988788888999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhc
Q 040481          172 IVIREIYSNVSRKV  185 (222)
Q Consensus       172 ~i~~~~~~~~~~~~  185 (222)
                      +|.+.+.+...++.
T Consensus       164 ~l~~~~~~~~~~~~  177 (181)
T 3tw8_B          164 CITELVLRAKKDNL  177 (181)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhhhhh
Confidence            99999888766543

>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=100.00  E-value=3.8e-33  Score=210.23  Aligned_cols=170  Identities=44%  Similarity=0.821  Sum_probs=155.7

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..++.++|+++|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|+
T Consensus        18 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   97 (189)
T 2gf9_A           18 GSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMG   97 (189)
T ss_dssp             TCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSE
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCE
Confidence            45677999999999999999999999999887778888888888888888889999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+++.+..|+..+........|+++|+||+|+.+.+.+..+++.+++...+++++++||++|.|++++|+
T Consensus        98 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  177 (189)
T 2gf9_A           98 FLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFE  177 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887667789999999999987777888889999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 040481          172 IVIREIYSNV  181 (222)
Q Consensus       172 ~i~~~~~~~~  181 (222)
                      +|++.+.+..
T Consensus       178 ~l~~~i~~~~  187 (189)
T 2gf9_A          178 RLVDVICEKM  187 (189)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999887653

>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=100.00  E-value=2.7e-33  Score=209.74  Aligned_cols=171  Identities=31%  Similarity=0.478  Sum_probs=151.7

Q ss_pred             CCCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc
Q 040481            8 GGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR   87 (222)
Q Consensus         8 ~~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   87 (222)
                      .......+.+||+++|++|||||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||++.+...+..+++
T Consensus        10 ~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~   88 (183)
T 3kkq_A           10 AVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMR   88 (183)
T ss_dssp             ----CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHH
T ss_pred             cCCccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHh
Confidence            3344566789999999999999999999999988888888877666 677778899999999999999999999999999


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccC-CCCC
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSAL-DSTN  165 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~-~~~~  165 (222)
                      .+|++|+|||++++.+|+.+..|+..+... ...++|+++|+||+|+.+.+.+..+++..++..++++++++||+ ++.|
T Consensus        89 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~  168 (183)
T 3kkq_A           89 TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLN  168 (183)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBS
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCC
Confidence            999999999999999999999999888664 34678999999999998888899999999999999999999999 9999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYS  179 (222)
Q Consensus       166 i~~~~~~i~~~~~~  179 (222)
                      ++++|++|++.+.+
T Consensus       169 v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          169 VDKTFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988764

>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=100.00  E-value=3.6e-33  Score=208.49  Aligned_cols=169  Identities=38%  Similarity=0.716  Sum_probs=153.1

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....++|+++|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus         8 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   87 (181)
T 2efe_B            8 NKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAA   87 (181)
T ss_dssp             --CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSE
T ss_pred             CCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCE
Confidence            45677999999999999999999999998888888888888888888889889999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+|+.+..|+..+.......+|+++|+||+|+.+.+.+..+++.+++...+++++++||++|.|++++|+
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  167 (181)
T 2efe_B           88 AIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFY  167 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887767889999999999987778888899999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          172 IVIREIYSN  180 (222)
Q Consensus       172 ~i~~~~~~~  180 (222)
                      +|++.+.+.
T Consensus       168 ~l~~~~~~~  176 (181)
T 2efe_B          168 EIARRLPRV  176 (181)
T ss_dssp             HHHHTCC--
T ss_pred             HHHHHHHhc
Confidence            998866543

>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=100.00  E-value=5.2e-33  Score=205.16  Aligned_cols=165  Identities=41%  Similarity=0.726  Sum_probs=151.8

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      +...++|+++|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            45779999999999999999999999988887888888888888888898899999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+++.+..|+..+.......+|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  162 (170)
T 1r2q_A           83 IVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999988876678999999999999877778888899999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          173 VIREI  177 (222)
Q Consensus       173 i~~~~  177 (222)
                      |.+.+
T Consensus       163 i~~~~  167 (170)
T 1r2q_A          163 IAKKL  167 (170)
T ss_dssp             HHHTS
T ss_pred             HHHHH
Confidence            88754

>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=100.00  E-value=2.7e-33  Score=213.13  Aligned_cols=174  Identities=45%  Similarity=0.768  Sum_probs=146.6

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ....+..++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+
T Consensus        19 ~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   98 (200)
T 2o52_A           19 SIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   98 (200)
T ss_dssp             ---CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccC
Confidence            34456789999999999999999999999888877888888888888888898889999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |++|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++
T Consensus        99 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l  178 (200)
T 2o52_A           99 AGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEA  178 (200)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999988776678999999999999877778888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhh
Q 040481          170 FEIVIREIYSNVSR  183 (222)
Q Consensus       170 ~~~i~~~~~~~~~~  183 (222)
                      |.+|++.+.++...
T Consensus       179 ~~~l~~~i~~~~~~  192 (200)
T 2o52_A          179 FLKCARTILNKIDS  192 (200)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999988876543

>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=100.00  E-value=1.4e-33  Score=215.24  Aligned_cols=170  Identities=37%  Similarity=0.678  Sum_probs=149.8

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ....++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCC   84 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEE
Confidence            45679999999999999999999999988888888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEEccCCCCCHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSD----TTVARMLVGNKCDLESIRNVSTEEGKSLAE-AEGLFFMETSALDSTNVK  167 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~  167 (222)
                      |+|||++++.+++.+..|+..+.....    .++|+++|+||+|+. .+.+..+++..++. ..+++++++||++|.|++
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  163 (207)
T 1vg8_A           85 VLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVE  163 (207)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHH
Confidence            999999999999999999988766542    468999999999997 45667778888887 678899999999999999


Q ss_pred             HHHHHHHHHHHHHhhh
Q 040481          168 SAFEIVIREIYSNVSR  183 (222)
Q Consensus       168 ~~~~~i~~~~~~~~~~  183 (222)
                      ++|++|++.+.+....
T Consensus       164 ~l~~~l~~~~~~~~~~  179 (207)
T 1vg8_A          164 QAFQTIARNALKQETE  179 (207)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccc
Confidence            9999999998876543

>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=100.00  E-value=1.7e-33  Score=208.01  Aligned_cols=167  Identities=40%  Similarity=0.699  Sum_probs=145.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .++.++|+++|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGA   82 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEE
Confidence            45679999999999999999999999988877888888888888888888889999999999999988899999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+++.+..|+..+........|+++|+||+|+.+.+.+..+++.+++...+++++++||++|.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  162 (170)
T 1z08_A           83 ILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLD  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Confidence            99999999999999999999887766567899999999999887788888999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 040481          173 VIREIYS  179 (222)
Q Consensus       173 i~~~~~~  179 (222)
                      +++.+.+
T Consensus       163 l~~~~~~  169 (170)
T 1z08_A          163 LCKRMIE  169 (170)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhh
Confidence            9987753

>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=100.00  E-value=5.7e-33  Score=207.18  Aligned_cols=170  Identities=44%  Similarity=0.723  Sum_probs=145.7

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ...+..++|+++|+++||||||+++|.+..+. ..+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   84 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDA   84 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGC
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCC
Confidence            34567899999999999999999999998875 45667888888877778899889999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |++|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++
T Consensus        85 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  164 (180)
T 2g6b_A           85 HALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLA  164 (180)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            99999999999999999999999998877678899999999999887788888899999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          170 FEIVIREIYSN  180 (222)
Q Consensus       170 ~~~i~~~~~~~  180 (222)
                      |+++.+.+.+.
T Consensus       165 ~~~l~~~~~~~  175 (180)
T 2g6b_A          165 FTAIAKELKRR  175 (180)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHHH
Confidence            99999887644

>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=100.00  E-value=2.6e-34  Score=217.10  Aligned_cols=172  Identities=45%  Similarity=0.802  Sum_probs=158.6

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ....+..+||+|+|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+
T Consensus        17 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   96 (191)
T 3dz8_A           17 QGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGA   96 (191)
T ss_dssp             TTEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTC
T ss_pred             ccccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccC
Confidence            34567889999999999999999999999988888888888888888888888888999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |++|+|||++++.+|+.+..|+..+.......+|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++
T Consensus        97 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  176 (191)
T 3dz8_A           97 MGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQA  176 (191)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHH
Confidence            99999999999999999999999998877778999999999999887888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 040481          170 FEIVIREIYSNV  181 (222)
Q Consensus       170 ~~~i~~~~~~~~  181 (222)
                      |++|++.+.+..
T Consensus       177 ~~~l~~~i~~~~  188 (191)
T 3dz8_A          177 FERLVDAICDKM  188 (191)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhc
Confidence            999999887654

>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=100.00  E-value=1.3e-32  Score=203.20  Aligned_cols=165  Identities=38%  Similarity=0.722  Sum_probs=152.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ..+.++|+++|++|+|||||+++|.+..+...+.++.+.++....+.+.+..+.+.+||+||.+.+...+..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            45679999999999999999999999998888888888888888888999899999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+++.+..|+..+.......+|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  162 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIE  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHH
Confidence            99999999999999999999998877778999999999999877788888999999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          173 VIREI  177 (222)
Q Consensus       173 i~~~~  177 (222)
                      |.+.+
T Consensus       163 i~~~i  167 (170)
T 1z0j_A          163 ISRRI  167 (170)
T ss_dssp             HHHHC
T ss_pred             HHHHH
Confidence            98765

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=3.1e-33  Score=211.42  Aligned_cols=170  Identities=38%  Similarity=0.751  Sum_probs=148.0

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      .+.+..++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||.+.+...+..+++.+|
T Consensus        21 ~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d  100 (192)
T 2il1_A           21 RPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAK  100 (192)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCS
T ss_pred             cccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCC
Confidence            45667899999999999999999999998887778888888888888889998899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..+++..++... +++++++||++|.|++++
T Consensus       101 ~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l  180 (192)
T 2il1_A          101 GIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEI  180 (192)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHH
Confidence            9999999999999999999999998877778999999999999877788888888888874 889999999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          170 FEIVIREIYSN  180 (222)
Q Consensus       170 ~~~i~~~~~~~  180 (222)
                      |++|++.+.++
T Consensus       181 ~~~l~~~i~~~  191 (192)
T 2il1_A          181 FLKLVDDILKK  191 (192)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999987653

>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=100.00  E-value=8.8e-33  Score=206.09  Aligned_cols=170  Identities=30%  Similarity=0.486  Sum_probs=150.8

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +....++|+++|++|||||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   83 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   83 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCE
Confidence            4456799999999999999999999999887777777776655 667778888899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKT-HSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +|+|||++++.+++.+..|+..+.. ....++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  163 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Confidence            9999999999999999999988744 345678999999999998877888889999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q 040481          171 EIVIREIYSNVS  182 (222)
Q Consensus       171 ~~i~~~~~~~~~  182 (222)
                      ++|.+.+.+...
T Consensus       164 ~~l~~~~~~~~~  175 (181)
T 2fn4_A          164 EQLVRAVRKYQE  175 (181)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhc
Confidence            999998876554

>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=100.00  E-value=9.1e-33  Score=203.88  Aligned_cols=163  Identities=42%  Similarity=0.705  Sum_probs=149.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            46899999999999999999999998888888888888888888889999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC---CCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI---RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |||++++.+++.+..|+..+......+.|+++|+||+|+.+.   +.+..++...++...+++++++||++|.|++++|+
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  161 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFL  161 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999999998877678999999999999764   66788888999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          172 IVIREI  177 (222)
Q Consensus       172 ~i~~~~  177 (222)
                      +|.+.+
T Consensus       162 ~l~~~i  167 (170)
T 1ek0_A          162 GIGEKI  167 (170)
T ss_dssp             HHHTTS
T ss_pred             HHHHHH
Confidence            988754

>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=100.00  E-value=1.4e-32  Score=207.13  Aligned_cols=172  Identities=37%  Similarity=0.686  Sum_probs=153.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEE-EEEEEECCe---------EEEEEEEeCCCcchhhhh
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQ-TQSMEIDGK---------EVKAQIWDTAGQERFRAV   81 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~---------~~~~~i~D~~G~~~~~~~   81 (222)
                      ..++.++|+++|++|||||||+++|.+..+...+.++.+.++. ...+.+++.         .+.+.+||+||++.+...
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   86 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSL   86 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHH
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHH
Confidence            4567899999999999999999999998887777888887776 556666655         788999999999999999


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      +..+++.+|++|+|||++++.++..+..|+..+..... .++|+++|+||+|+.+.+.+..+++.+++...+++++++||
T Consensus        87 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  166 (195)
T 3bc1_A           87 TTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSA  166 (195)
T ss_dssp             HHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCT
T ss_pred             HHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEEC
Confidence            99999999999999999999999999999998877654 67899999999999877788888899999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhhh
Q 040481          161 LDSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                      +++.|++++|++|.+.+.++..+
T Consensus       167 ~~~~~v~~l~~~l~~~~~~~~~~  189 (195)
T 3bc1_A          167 ANGTNISHAIEMLLDLIMKRMER  189 (195)
T ss_dssp             TTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHhhh
Confidence            99999999999999988876544

>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=100.00  E-value=3.9e-33  Score=205.97  Aligned_cols=165  Identities=45%  Similarity=0.829  Sum_probs=144.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            46899999999999999999999998887788888888888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |||++++.+++.+..|+..+......+.|+++|+||+|+ ..+.+..+++..++...+++++++||++|.|++++|.++.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  160 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  160 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999999998877678899999999999 4456778888899999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          175 REIYSN  180 (222)
Q Consensus       175 ~~~~~~  180 (222)
                      +.+.++
T Consensus       161 ~~~~~~  166 (170)
T 1g16_A          161 KLIQEK  166 (170)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            988754

>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=100.00  E-value=7.5e-33  Score=204.08  Aligned_cols=165  Identities=36%  Similarity=0.637  Sum_probs=150.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      +..++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            46799999999999999999999999888888888888888888888988899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+++.+..|+..+.... ...|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++|++|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  161 (168)
T 1z2a_A           83 LVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL  161 (168)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Confidence            9999999999999999998887655 568999999999998777788888999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      .+.+++
T Consensus       162 ~~~~~~  167 (168)
T 1z2a_A          162 AEKHLQ  167 (168)
T ss_dssp             HHHHHC
T ss_pred             HHHHhh
Confidence            987763

>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=100.00  E-value=6.9e-33  Score=209.45  Aligned_cols=167  Identities=38%  Similarity=0.702  Sum_probs=152.4

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..++.++|+++|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        19 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (192)
T 2fg5_A           19 SAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAA   98 (192)
T ss_dssp             --CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSE
T ss_pred             ccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCE
Confidence            45678999999999999999999999998877788888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++.+++.+..|+..+.......+|+++|+||+|+.+.+.+..+++.+++...+++++++||++|.|++++|+
T Consensus        99 iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  178 (192)
T 2fg5_A           99 AVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQ  178 (192)
T ss_dssp             EEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHH
Confidence            99999999999999999999999887767799999999999987777888899999999999999999999999999999


Q ss_pred             HHHHHHH
Q 040481          172 IVIREIY  178 (222)
Q Consensus       172 ~i~~~~~  178 (222)
                      +|.+.+.
T Consensus       179 ~l~~~i~  185 (192)
T 2fg5_A          179 GISRQIP  185 (192)
T ss_dssp             HHHHTCC
T ss_pred             HHHHHHH
Confidence            9988654

>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=100.00  E-value=1.1e-32  Score=206.02  Aligned_cols=168  Identities=32%  Similarity=0.436  Sum_probs=149.9

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ....++|+++|++|||||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus         3 ~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   81 (181)
T 3t5g_A            3 QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGY   81 (181)
T ss_dssp             CEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEE
Confidence            45679999999999999999999998888888888877766 66777889999999999999999998999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |+|||++++.+|+.+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  161 (181)
T 3t5g_A           82 ILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFR  161 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHH
Confidence            999999999999999999988866543 5789999999999988888999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 040481          172 IVIREIYSNV  181 (222)
Q Consensus       172 ~i~~~~~~~~  181 (222)
                      ++++.+.+..
T Consensus       162 ~l~~~~~~~~  171 (181)
T 3t5g_A          162 RIILEAEKMD  171 (181)
T ss_dssp             HHHHHHHTC-
T ss_pred             HHHHHHHHhc
Confidence            9999887554

>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=100.00  E-value=7.4e-33  Score=206.14  Aligned_cols=166  Identities=41%  Similarity=0.713  Sum_probs=151.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      +...++|+++|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus        11 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   90 (179)
T 2y8e_A           11 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVA   90 (179)
T ss_dssp             -CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            44569999999999999999999999988888888888888888888999889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+++.+..|+..+......++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        91 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  170 (179)
T 2y8e_A           91 VVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRR  170 (179)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999888776677899999999999877788888889999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          173 VIREIY  178 (222)
Q Consensus       173 i~~~~~  178 (222)
                      |.+.+.
T Consensus       171 l~~~~~  176 (179)
T 2y8e_A          171 VAAALP  176 (179)
T ss_dssp             HHHTCC
T ss_pred             HHHHHh
Confidence            887653

>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=100.00  E-value=4.7e-32  Score=204.70  Aligned_cols=172  Identities=45%  Similarity=0.777  Sum_probs=154.3

Q ss_pred             CCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcC
Q 040481            9 GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG   88 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   88 (222)
                      ........++|+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.
T Consensus         8 ~~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   87 (195)
T 1x3s_A            8 MDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRG   87 (195)
T ss_dssp             -CTTEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTT
T ss_pred             cccCCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhcc
Confidence            34456678999999999999999999999999888888888888888888899999999999999999999999999999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      +|++|+|||++++.++..+..|+..+..... ..+|+++|+||+|+.+ +.+..+++..++...+++++++||+++.|++
T Consensus        88 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  166 (195)
T 1x3s_A           88 AQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQ  166 (195)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc-cccCHHHHHHHHHHcCCEEEEecCCCCCCHH
Confidence            9999999999999999999999999877653 5689999999999954 5677788889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 040481          168 SAFEIVIREIYSNV  181 (222)
Q Consensus       168 ~~~~~i~~~~~~~~  181 (222)
                      ++|++|++.+.+..
T Consensus       167 ~l~~~l~~~~~~~~  180 (195)
T 1x3s_A          167 CAFEELVEKIIQTP  180 (195)
T ss_dssp             HHHHHHHHHHHTSG
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999887543

>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=100.00  E-value=2.1e-32  Score=209.57  Aligned_cols=173  Identities=43%  Similarity=0.804  Sum_probs=152.7

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ..+....++|+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+
T Consensus        14 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (213)
T 3cph_A           14 GKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGA   93 (213)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTC
T ss_pred             CCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccC
Confidence            34556679999999999999999999999988888888888888888888899889999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |++|+|||++++.+|+.+..|+..+.......+|+++|+||+|+ ..+.+..+++..++...+++++++||++|.|++++
T Consensus        94 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  172 (213)
T 3cph_A           94 MGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEI  172 (213)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999998877677899999999999 44667778888899999999999999999999999


Q ss_pred             HHHHHHHHHHHhhh
Q 040481          170 FEIVIREIYSNVSR  183 (222)
Q Consensus       170 ~~~i~~~~~~~~~~  183 (222)
                      |.+|.+.+.+....
T Consensus       173 ~~~l~~~~~~~~~~  186 (213)
T 3cph_A          173 FFTLAKLIQEKIDS  186 (213)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999988776543

>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=100.00  E-value=8.7e-33  Score=209.64  Aligned_cols=170  Identities=27%  Similarity=0.369  Sum_probs=144.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh-hHHHhhcCCC
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA-VTSAYYRGAV   90 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d   90 (222)
                      +....++|+++|++|||||||+++|.+........++.+.+.....+.+++..+.+.+||++|.+.+.. ++..+++.+|
T Consensus        19 ~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d   98 (195)
T 3cbq_A           19 QKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGD   98 (195)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCS
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCC
Confidence            456679999999999999999999976554434445556666777778899999999999999987764 7778899999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|||++++.+|+.+..|+..+..... ..+|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++
T Consensus        99 ~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~l  178 (195)
T 3cbq_A           99 AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTREL  178 (195)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHH
Confidence            99999999999999999999998877654 57899999999999877788888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 040481          170 FEIVIREIYSNV  181 (222)
Q Consensus       170 ~~~i~~~~~~~~  181 (222)
                      |.++++.+.+.+
T Consensus       179 f~~l~~~i~~~~  190 (195)
T 3cbq_A          179 FEGAVRQIRLRR  190 (195)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhc
Confidence            999999876543

>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=100.00  E-value=3.1e-32  Score=202.16  Aligned_cols=167  Identities=31%  Similarity=0.447  Sum_probs=137.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--hhhhHHHhhcCCCEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--FRAVTSAYYRGAVGA   92 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~d~v   92 (222)
                      +.++|+++|++|||||||+++|.+..+...+. +.+.+.....+.+++..+.+.+||+||++.  +......+++.+|++
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----CC-CSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccccC-ccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            46899999999999999999999887755433 456677777788899899999999999887  566777888999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |+|||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  161 (175)
T 2nzj_A           82 VIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFE  161 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Confidence            99999999999999999998887753 35789999999999988778888888889999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 040481          172 IVIREIYSNVS  182 (222)
Q Consensus       172 ~i~~~~~~~~~  182 (222)
                      +|++.+..++.
T Consensus       162 ~l~~~~~~~~~  172 (175)
T 2nzj_A          162 GVVRQLRLRRR  172 (175)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhhc
Confidence            99998876543

>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=100.00  E-value=6.2e-32  Score=202.96  Aligned_cols=167  Identities=35%  Similarity=0.562  Sum_probs=144.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|++|||||||+++|.+..+...+.++.+ +.....+.+++..+.+.+||+||++.+...+..+++.+|++++
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   81 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   81 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEE
Confidence            568999999999999999999999888777766654 4455667788889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+ .....+.+..++...+++++++||++|.|++++|.++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  160 (189)
T 4dsu_A           82 VFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTL  160 (189)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            999999999999999998887754 36789999999999974 5677888899999999999999999999999999999


Q ss_pred             HHHHHHHhhh
Q 040481          174 IREIYSNVSR  183 (222)
Q Consensus       174 ~~~~~~~~~~  183 (222)
                      .+.+.+...+
T Consensus       161 ~~~~~~~~~~  170 (189)
T 4dsu_A          161 VREIRKHKEK  170 (189)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHhhhh
Confidence            9988876544

>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=100.00  E-value=4.2e-32  Score=201.93  Aligned_cols=167  Identities=41%  Similarity=0.734  Sum_probs=147.0

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....++|+++|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus         3 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T 1wms_A            3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDC   82 (177)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             CccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCE
Confidence            45678999999999999999999999998888888888888888888889988999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEEccCCCCCH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD----TTVARMLVGNKCDLESIRNVSTEEGKSLAE-AEGLFFMETSALDSTNV  166 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i  166 (222)
                      +|+|||++++.+++.+..|+..+.....    .++|+++|+||+|+. .+.+..+++.+++. ..+++++++||++|.|+
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (177)
T 1wms_A           83 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNV  161 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCH
Confidence            9999999999999999999988876543    678999999999997 46677888888888 56789999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYS  179 (222)
Q Consensus       167 ~~~~~~i~~~~~~  179 (222)
                      +++|+++++.+++
T Consensus       162 ~~l~~~l~~~~~~  174 (177)
T 1wms_A          162 AAAFEEAVRRVLA  174 (177)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998864

>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=100.00  E-value=1.3e-32  Score=203.16  Aligned_cols=165  Identities=28%  Similarity=0.383  Sum_probs=134.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh-hHHHhhcCCCEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA-VTSAYYRGAVGALI   94 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~vi~   94 (222)
                      .+||+++|++|||||||+++|.+......+.++.+.+.....+.+++..+.+.+||+||++.+.. .+..+++.+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            58999999999999999999998777666666667778888888899999999999999988865 67778899999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  161 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGA  161 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHH
Confidence            9999999999999999998877654 478999999999998888899999999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 040481          174 IREIYSN  180 (222)
Q Consensus       174 ~~~~~~~  180 (222)
                      ++.+..+
T Consensus       162 ~~~i~~~  168 (169)
T 3q85_A          162 VRQIRLR  168 (169)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9987764

>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=100.00  E-value=4.3e-32  Score=203.95  Aligned_cols=167  Identities=19%  Similarity=0.290  Sum_probs=143.5

Q ss_pred             CCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcC
Q 040481            9 GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG   88 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   88 (222)
                      ........+||+++|++|||||||+++|++..+...+.++ +.. ....+.+++..+.+.+||++|++.+.     +++.
T Consensus        13 ~~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t-~~~-~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~   85 (184)
T 3ihw_A           13 NLYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPE-GGR-FKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAW   85 (184)
T ss_dssp             ---CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTT-CEE-EEEEEEETTEEEEEEEEECSSSCCHH-----HHHH
T ss_pred             CCCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCC-cce-EEEEEEECCEEEEEEEEECCCChhhh-----eecC
Confidence            3456677899999999999999999999999887777666 333 34777889999999999999998876     6788


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHHcC-CeEEEEccCCCC
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLE--SIRNVSTEEGKSLAEAEG-LFFMETSALDST  164 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~--~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~  164 (222)
                      +|++|+|||++++.+|+.+..|+..+..... ..+|+++|+||+|+.  ..+.+..+++.+++...+ ++|+++||++|.
T Consensus        86 ~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  165 (184)
T 3ihw_A           86 VDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGL  165 (184)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTB
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCC
Confidence            9999999999999999999999999987754 578999999999994  467788889999999987 899999999999


Q ss_pred             CHHHHHHHHHHHHHHHhh
Q 040481          165 NVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~~~  182 (222)
                      ||+++|.++++.+.+.+.
T Consensus       166 gv~~lf~~l~~~i~~~~~  183 (184)
T 3ihw_A          166 NVERVFQDVAQKVVALRK  183 (184)
T ss_dssp             THHHHHHHHHHHHHHHC-
T ss_pred             CHHHHHHHHHHHHHHHhc
Confidence            999999999998887643

>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=100.00  E-value=1e-32  Score=212.22  Aligned_cols=174  Identities=36%  Similarity=0.712  Sum_probs=152.8

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe----------EEEEEEEeCCCcchhh
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK----------EVKAQIWDTAGQERFR   79 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~i~D~~G~~~~~   79 (222)
                      ....++.++|+|+|+++||||||+++|++..+...+.++.+.++....+.+++.          .+.+.+||+||++.+.
T Consensus        19 ~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~   98 (217)
T 2f7s_A           19 SGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFR   98 (217)
T ss_dssp             --CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHH
T ss_pred             CCCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHH
Confidence            345577899999999999999999999998887767777777777777777765          7889999999999999


Q ss_pred             hhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEE
Q 040481           80 AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMET  158 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  158 (222)
                      ..+..+++.+|++|+|||++++.+++.+..|+..+..... .++|+++|+||+|+.+.+.+..+++.+++...+++++++
T Consensus        99 ~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~  178 (217)
T 2f7s_A           99 SLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFET  178 (217)
T ss_dssp             HHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEE
T ss_pred             hHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEE
Confidence            9999999999999999999999999999999988766554 678999999999998777888889999999999999999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHHhhh
Q 040481          159 SALDSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                      ||+++.|++++|++|++.+.++...
T Consensus       179 Sa~~g~gi~~l~~~l~~~i~~~~~~  203 (217)
T 2f7s_A          179 SAATGQNVEKAVETLLDLIMKRMEQ  203 (217)
T ss_dssp             BTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999988876544

>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=100.00  E-value=7.4e-33  Score=210.44  Aligned_cols=168  Identities=42%  Similarity=0.690  Sum_probs=139.2

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ......++|+++|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus        23 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  102 (199)
T 2p5s_A           23 FSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKAD  102 (199)
T ss_dssp             -----CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCS
T ss_pred             cCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCC
Confidence            34566799999999999999999999999887777788888888888888999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC------cCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE------SIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                      ++|+|||++++.+++.+..|+..+.......+|+++|+||+|+.      ..+.+..+++..++...+++++++||++|.
T Consensus       103 ~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~  182 (199)
T 2p5s_A          103 GVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGS  182 (199)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCT
T ss_pred             EEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCC
Confidence            99999999999999999999999988766778999999999996      346677888899999999999999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREIY  178 (222)
Q Consensus       165 ~i~~~~~~i~~~~~  178 (222)
                      |++++|.+|++.+.
T Consensus       183 gv~el~~~l~~~i~  196 (199)
T 2p5s_A          183 NIVEAVLHLAREVK  196 (199)
T ss_dssp             THHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999998775

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=4.9e-33  Score=207.19  Aligned_cols=168  Identities=34%  Similarity=0.524  Sum_probs=147.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC-eEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG-KEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..+.++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++ ..+.+.+||+||++.+...+..+++.+|+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   82 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQG   82 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCE
Confidence            34569999999999999999999999887766677878888888888876 67889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC--CCCc-EEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD--TTVA-RMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p-~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      +|+|||++++.+|+.+..|+..+.....  ...| +++|+||+|+.+.+.+..+++..++...+++++++||++|.|+++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  162 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFL  162 (178)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHH
Confidence            9999999999999999999988876432  2345 789999999987777888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          169 AFEIVIREIYSN  180 (222)
Q Consensus       169 ~~~~i~~~~~~~  180 (222)
                      +|++|++.+.+.
T Consensus       163 l~~~l~~~~~~~  174 (178)
T 2hxs_A          163 CFQKVAAEILGI  174 (178)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhh
Confidence            999999887644

>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=100.00  E-value=2.7e-32  Score=205.58  Aligned_cols=168  Identities=40%  Similarity=0.755  Sum_probs=148.1

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh-hhHHHhhcCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-AVTSAYYRGA   89 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~   89 (222)
                      .+....++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||.+.+. ..+..+++.+
T Consensus        15 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~   94 (189)
T 1z06_A           15 GSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNV   94 (189)
T ss_dssp             ----CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTC
T ss_pred             CCCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCC
Confidence            344567999999999999999999999998888888888888888888889988999999999999988 8899999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC---CC
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS---TN  165 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~---~~  165 (222)
                      |++|+|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++...+++++++||+++   .|
T Consensus        95 d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~  174 (189)
T 1z06_A           95 HAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDH  174 (189)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSC
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccC
Confidence            99999999999999999999999887765 467899999999999877788888999999999999999999999   99


Q ss_pred             HHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIY  178 (222)
Q Consensus       166 i~~~~~~i~~~~~  178 (222)
                      +.++|.+|++.+.
T Consensus       175 i~~l~~~l~~~i~  187 (189)
T 1z06_A          175 VEAIFMTLAHKLK  187 (189)
T ss_dssp             HHHHHHHHC----
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=100.00  E-value=2.6e-32  Score=205.57  Aligned_cols=166  Identities=29%  Similarity=0.464  Sum_probs=141.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....+||+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+... ..+++.+|+
T Consensus        17 ~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~   94 (187)
T 3c5c_A           17 QGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHA   94 (187)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSE
T ss_pred             CCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCE
Confidence            445679999999999999999999999988877788877665 345667888999999999999888765 578999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc-CCCCCHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD---TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA-LDSTNVK  167 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa-~~~~~i~  167 (222)
                      +|+|||++++.+|+.+..|+..+.....   .++|+++|+||+|+.+.+.+..+++.+++...+++++++|| ++|.||+
T Consensus        95 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~  174 (187)
T 3c5c_A           95 FLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQ  174 (187)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHH
Confidence            9999999999999999999998877532   56899999999999877888889999999999999999999 8999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYS  179 (222)
Q Consensus       168 ~~~~~i~~~~~~  179 (222)
                      ++|+.+++.+.+
T Consensus       175 ~lf~~l~~~i~~  186 (187)
T 3c5c_A          175 HVFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhh
Confidence            999999987753

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=4.4e-33  Score=212.43  Aligned_cols=171  Identities=27%  Similarity=0.461  Sum_probs=115.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC--cCCCCCCCccceeEEEEEEEECCe--EEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN--EFNPHSKATIGVEFQTQSMEIDGK--EVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ...++|+++|++|||||||+++|.+.  .+...+.++.+.++....+.+++.  .+.+.+||+||++.+...+..+++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            67799999999999999999999998  666677777777777778888876  88999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCc-CCCCCHHHHHHHHHHcCCeEEEEccCC-CC
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSD---TTVARMLVGNKCDLES-IRNVSTEEGKSLAEAEGLFFMETSALD-ST  164 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~sa~~-~~  164 (222)
                      |++|+|||++++.+|+.+..|+..+.....   .++|+++|+||+|+.+ .+.+..+++..++...+++++++||++ |.
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~  177 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGK  177 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-----
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCc
Confidence            999999999999999999999999988766   6789999999999987 678888899999999999999999999 99


Q ss_pred             CHHHHHHHHHHHHHHHhhhh
Q 040481          165 NVKSAFEIVIREIYSNVSRK  184 (222)
Q Consensus       165 ~i~~~~~~i~~~~~~~~~~~  184 (222)
                      |++++|++|++.+.+...++
T Consensus       178 gi~~l~~~i~~~~~~~~~~~  197 (208)
T 2yc2_C          178 DADAPFLSIATTFYRNYEDK  197 (208)
T ss_dssp             --CHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhh
Confidence            99999999999888776543

>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=100.00  E-value=1.8e-32  Score=210.87  Aligned_cols=175  Identities=25%  Similarity=0.425  Sum_probs=144.9

Q ss_pred             CCCCCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHh
Q 040481            6 EEGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAY   85 (222)
Q Consensus         6 ~~~~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   85 (222)
                      +.+...+....+||+++|+++||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||++|++.+...+..+
T Consensus        17 q~~~~~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   95 (214)
T 3q3j_B           17 QGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLC   95 (214)
T ss_dssp             ----------CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGG
T ss_pred             hccCCCCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHH
Confidence            334445667789999999999999999999999998888888877665 3456677788899999999999999999999


Q ss_pred             hcCCCEEEEEEECCChhhHHH-HHHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC
Q 040481           86 YRGAVGALIVYDITRRTTFDS-ISRWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEG  152 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~  152 (222)
                      ++.+|++|+|||++++.+|+. +..|+..+.... ..+|+++|+||+|+.+.            +.+..+++..++...+
T Consensus        96 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  174 (214)
T 3q3j_B           96 YSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLG  174 (214)
T ss_dssp             CTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHT
T ss_pred             cCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcC
Confidence            999999999999999999999 689999988765 56899999999999753            6788899999999999


Q ss_pred             C-eEEEEccCCCCC-HHHHHHHHHHHHHHHhh
Q 040481          153 L-FFMETSALDSTN-VKSAFEIVIREIYSNVS  182 (222)
Q Consensus       153 ~-~~~~~sa~~~~~-i~~~~~~i~~~~~~~~~  182 (222)
                      + +|++|||++|.| |+++|+++++.+.....
T Consensus       175 ~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          175 AEIYLEGSAFTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             CSEEEECCTTTCHHHHHHHHHHHHHHHHC---
T ss_pred             CCEEEEeccCCCcccHHHHHHHHHHHHhccCc
Confidence            9 999999999998 99999999998875543

>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=100.00  E-value=8.2e-32  Score=201.84  Aligned_cols=170  Identities=34%  Similarity=0.518  Sum_probs=147.9

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ......++|+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   91 (187)
T 2a9k_A           13 QNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGE   91 (187)
T ss_dssp             ----CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCS
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCC
Confidence            3455679999999999999999999999888777777765544 445667888889999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|||++++.+|+.+..|+..+..... ..+|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++
T Consensus        92 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  171 (187)
T 2a9k_A           92 GFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKV  171 (187)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHH
Confidence            99999999999999999999988877654 57899999999999877778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 040481          170 FEIVIREIYSNV  181 (222)
Q Consensus       170 ~~~i~~~~~~~~  181 (222)
                      |++|++.+.+++
T Consensus       172 ~~~l~~~i~~~~  183 (187)
T 2a9k_A          172 FFDLMREIRARK  183 (187)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999887654

>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=100.00  E-value=7.5e-32  Score=206.80  Aligned_cols=169  Identities=28%  Similarity=0.386  Sum_probs=139.9

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcC--CCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-hhhhHHHhhc
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEF--NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-FRAVTSAYYR   87 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~   87 (222)
                      ......+||+|+|++|||||||+++|.+...  ... .++++.++....+.+++..+.+.+||++|.+. +..+...+++
T Consensus        32 ~~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~-~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~  110 (211)
T 2g3y_A           32 ESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-CEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQ  110 (211)
T ss_dssp             ---CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCC
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCc-CCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHh
Confidence            3455679999999999999999999997543  333 33456677777788899999999999999876 4556677788


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      .+|++|+|||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++..+++++++|||++|.||
T Consensus       111 ~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v  190 (211)
T 2g3y_A          111 VGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNV  190 (211)
T ss_dssp             CCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSH
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCH
Confidence            9999999999999999999999998887643 356899999999999877778888888889999999999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYSN  180 (222)
Q Consensus       167 ~~~~~~i~~~~~~~  180 (222)
                      +++|+++++.+...
T Consensus       191 ~elf~~l~~~i~~~  204 (211)
T 2g3y_A          191 KELFEGIVRQVRLR  204 (211)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999987543

>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=100.00  E-value=9.4e-32  Score=197.91  Aligned_cols=164  Identities=35%  Similarity=0.544  Sum_probs=142.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEE
Confidence            358999999999999999999999887777777766554 3456678888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+++.+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (168)
T 1u8z_A           82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDL  161 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHH
Confidence            9999999999999999988877654 578999999999998777788889999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      ++.+.+
T Consensus       162 ~~~i~~  167 (168)
T 1u8z_A          162 MREIRA  167 (168)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            987753

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=2.1e-32  Score=208.23  Aligned_cols=170  Identities=31%  Similarity=0.455  Sum_probs=144.6

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      .+....+||+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus        19 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   97 (201)
T 3oes_A           19 MPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVH   97 (201)
T ss_dssp             ----CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCC
T ss_pred             CCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCC
Confidence            4556789999999999999999999999998877778777666 556666777888999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|||++++.+|+.+..|+..+..... .++|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++
T Consensus        98 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  177 (201)
T 3oes_A           98 GYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGI  177 (201)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHH
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHH
Confidence            99999999999999999999999877643 56899999999999888889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 040481          170 FEIVIREIYSNV  181 (222)
Q Consensus       170 ~~~i~~~~~~~~  181 (222)
                      |.+|++.+.+..
T Consensus       178 ~~~l~~~i~~~~  189 (201)
T 3oes_A          178 FTKVIQEIARVE  189 (201)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHhhh
Confidence            999999887654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=1.9e-31  Score=202.42  Aligned_cols=166  Identities=37%  Similarity=0.667  Sum_probs=146.9

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeE----------------------------
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKE----------------------------   64 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------   64 (222)
                      .+..++|+++|+++||||||+++|++..+...+.++.+.++....+.+++..                            
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC------------------------------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccc
Confidence            3457999999999999999999999998887788888888887777777655                            


Q ss_pred             ---------EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           65 ---------VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        65 ---------~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                               +.+.+||+||++.+...+..+++.+|++|+|||++++.+++.+..|+..+.....  .|+++|+||+| ..
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~NK~D-~~  160 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVANKID-KN  160 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEECTT-CC
T ss_pred             ccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEECCC-cc
Confidence                     8899999999999999999999999999999999999999999999998877654  89999999999 55


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHHHh
Q 040481          136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~~  181 (222)
                      .+.+..+++.+++...+++++++||++|.|++++|++|++.+.++.
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          161 KFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             -CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            5678888999999999999999999999999999999999887653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=1.6e-32  Score=210.33  Aligned_cols=168  Identities=29%  Similarity=0.561  Sum_probs=142.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   85 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFV   85 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEE
Confidence            4579999999999999999999999888777777776554 345667888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--------CCHHHHHHHHHHcCC-eEEEEccCCC
Q 040481           94 IVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIRN--------VSTEEGKSLAEAEGL-FFMETSALDS  163 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~-~~~~~sa~~~  163 (222)
                      +|||++++.+|+.+. .|+..+.... .++|+++|+||+|+.+...        +..+++.+++...++ +++++||++|
T Consensus        86 lv~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g  164 (212)
T 2j0v_A           86 LAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQ  164 (212)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCC
Confidence            999999999999996 7999887765 3689999999999965433        477888889999886 8999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhh
Q 040481          164 TNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~~~~~  183 (222)
                      .|++++|+++++.+.+...+
T Consensus       165 ~gi~~l~~~l~~~~~~~~~~  184 (212)
T 2j0v_A          165 QNVKAVFDTAIKVVLQPPRR  184 (212)
T ss_dssp             TTHHHHHHHHHHHHHCC---
T ss_pred             CCHHHHHHHHHHHHhhhhhh
Confidence            99999999999988766443

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=1e-31  Score=204.15  Aligned_cols=172  Identities=30%  Similarity=0.500  Sum_probs=138.9

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      .......++|+++|++|||||||+++|.+..+...+.++++..+ ...+.+++..+.+.+||+||++.+...+..++..+
T Consensus        14 ~~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   92 (201)
T 2q3h_A           14 GGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNT   92 (201)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTC
T ss_pred             CCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCC
Confidence            34566789999999999999999999999887777777765444 45667788889999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eE
Q 040481           90 VGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEGL-FF  155 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~  155 (222)
                      |++|+|||++++.+|+.+. .|+..+..... ++|+++|+||+|+.+            .+.+..+++..++...++ ++
T Consensus        93 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  171 (201)
T 2q3h_A           93 DIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASY  171 (201)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCS-SSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEE
Confidence            9999999999999999996 79988877653 789999999999975            356778888999998887 89


Q ss_pred             EEEccCCCCCHHHHHHHHHHHHHHHhhh
Q 040481          156 METSALDSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       156 ~~~sa~~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                      +++||++|.|++++|+++++.+.+...+
T Consensus       172 ~~~Sa~~g~gi~~l~~~l~~~~~~~~~~  199 (201)
T 2q3h_A          172 IECSALTQKNLKEVFDAAIVAGIQYSDT  199 (201)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHHHC-
T ss_pred             EEEecCCCCCHHHHHHHHHHHHhccccc
Confidence            9999999999999999999988876543

>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=100.00  E-value=7.6e-32  Score=198.55  Aligned_cols=163  Identities=31%  Similarity=0.436  Sum_probs=123.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||+++|.+...... .++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCC-CCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            57999999999999999999987665432 33434444 35567788999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  159 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  159 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHH
Confidence            99999999999999998887654 36789999999999988888999999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          175 REIYSN  180 (222)
Q Consensus       175 ~~~~~~  180 (222)
                      +.+.++
T Consensus       160 ~~~~~~  165 (166)
T 3q72_A          160 RQIRLR  165 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            988754

>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=100.00  E-value=2.8e-32  Score=206.71  Aligned_cols=163  Identities=28%  Similarity=0.412  Sum_probs=140.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|+++||||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            45689999999999999999999998887777777664443 44567888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|||++++.+++.+..|+..+.....  .++|+++|+||+|+.+ +.+..+++..++..++++++++||++|.|++++|+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (199)
T 2gf0_A           85 LVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQ  163 (199)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Confidence            99999999999999888877766432  4689999999999975 56777888889999999999999999999999999


Q ss_pred             HHHHHHH
Q 040481          172 IVIREIY  178 (222)
Q Consensus       172 ~i~~~~~  178 (222)
                      +|++.+.
T Consensus       164 ~l~~~~~  170 (199)
T 2gf0_A          164 ELLTLET  170 (199)
T ss_dssp             HHHHHCS
T ss_pred             HHHHHHh
Confidence            9988654

>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=100.00  E-value=3.8e-32  Score=202.80  Aligned_cols=169  Identities=38%  Similarity=0.681  Sum_probs=135.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ....++|+++|++|+|||||+++|.+..+...+.++.+.++....+.++ +..+.+.+||+||++.+...+..+++.+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   84 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC   84 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCE
Confidence            4567999999999999999999999998888888888888888877776 566889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCCc-CCCCCHHHHHHHHH-HcCCeEEEEccCCCCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD----TTVARMLVGNKCDLES-IRNVSTEEGKSLAE-AEGLFFMETSALDSTN  165 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~  165 (222)
                      +|+|||++++.+++.+..|+..+.....    .++|+++|+||+|+.+ .+.+..+++.+++. ..+++++++||++|.|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g  164 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAIN  164 (182)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBS
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCC
Confidence            9999999999999999999988866543    6789999999999954 45567788888888 5678999999999999


Q ss_pred             HHHHHHHHHHHHHHHh
Q 040481          166 VKSAFEIVIREIYSNV  181 (222)
Q Consensus       166 i~~~~~~i~~~~~~~~  181 (222)
                      ++++|+++++.+.++.
T Consensus       165 i~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          165 VDTAFEEIARSALQQN  180 (182)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999999887654

>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=100.00  E-value=1.2e-31  Score=202.72  Aligned_cols=168  Identities=31%  Similarity=0.539  Sum_probs=146.9

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ......+||+++|++|||||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus        18 ~~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   96 (194)
T 3reg_A           18 ENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSD   96 (194)
T ss_dssp             ---CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCS
T ss_pred             cccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCc
Confidence            34566799999999999999999999999987777788766655 35667888999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC--CCCCHHHHHHHHHHcCCe-EEEEccCCCCCH
Q 040481           91 GALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI--RNVSTEEGKSLAEAEGLF-FMETSALDSTNV  166 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i  166 (222)
                      ++|+|||++++.+|+.+ ..|+..+.... ..+|+++|+||+|+.+.  +.+..+++.+++...++. ++++||++|.|+
T Consensus        97 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  175 (194)
T 3reg_A           97 VVLLCFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGL  175 (194)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCH
Confidence            99999999999999997 77888887654 56899999999999753  678888999999999998 999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYSN  180 (222)
Q Consensus       167 ~~~~~~i~~~~~~~  180 (222)
                      +++|+++++.+.++
T Consensus       176 ~~l~~~l~~~i~~~  189 (194)
T 3reg_A          176 NEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999988754

>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=100.00  E-value=7.9e-32  Score=198.38  Aligned_cols=163  Identities=33%  Similarity=0.545  Sum_probs=143.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.++|+++|++|||||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+||+||++.+...+..+++.+|++++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   80 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            3589999999999999999999998887777777665543 456677788899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++... +++++++||++|.|++++|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (167)
T 1c1y_A           81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHH
Confidence            999999999999999988886653 357899999999999887788888899999887 899999999999999999999


Q ss_pred             HHHHHH
Q 040481          173 VIREIY  178 (222)
Q Consensus       173 i~~~~~  178 (222)
                      |.+.+.
T Consensus       161 l~~~i~  166 (167)
T 1c1y_A          161 LVRQIN  166 (167)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            988763

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=100.00  E-value=1.7e-31  Score=199.00  Aligned_cols=163  Identities=21%  Similarity=0.334  Sum_probs=137.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      .+.+||+++|++|||||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+||+||++.     ..+++.+|++|
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~i   77 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVI   77 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEE
Confidence            456999999999999999999999988876 566666443 56677788889999999999876     45778899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhc---CCCCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTH---SDTTVARMLVGNKCDLE--SIRNVSTEEGKSLAEAE-GLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~---~~~~~p~iiv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|+.+..|+..+...   ...++|+++|+||+|+.  ..+.+..+++.+++... +++++++||++|.|++
T Consensus        78 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  157 (178)
T 2iwr_A           78 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVD  157 (178)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHH
Confidence            999999999999999976555443   33678999999999994  45678888888888876 6899999999999999


Q ss_pred             HHHHHHHHHHHHHhhh
Q 040481          168 SAFEIVIREIYSNVSR  183 (222)
Q Consensus       168 ~~~~~i~~~~~~~~~~  183 (222)
                      ++|+++++.+.+.+..
T Consensus       158 ~lf~~l~~~~~~~~~~  173 (178)
T 2iwr_A          158 RVFQEVAQKVVTLRKQ  173 (178)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999988876543

>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=100.00  E-value=1.7e-31  Score=196.34  Aligned_cols=163  Identities=34%  Similarity=0.526  Sum_probs=144.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|++|+|||||+++|.++.+...+.++.+.. ....+.+++..+.+.+||+||++.+...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~   80 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCccee-EEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            35899999999999999999999988877777765543 35667788888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+++.+..|+..+..... .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  160 (167)
T 1kao_A           81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHH
Confidence            9999999999999999888866543 578999999999998777888888899999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          174 IREIY  178 (222)
Q Consensus       174 ~~~~~  178 (222)
                      ++.+.
T Consensus       161 ~~~~~  165 (167)
T 1kao_A          161 VRQMN  165 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            88764

>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=100.00  E-value=2e-31  Score=201.92  Aligned_cols=167  Identities=34%  Similarity=0.448  Sum_probs=146.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ....++|+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||.+. ...+..+++.+|++
T Consensus        25 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~i  102 (196)
T 2atv_A           25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGF  102 (196)
T ss_dssp             --CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEE
Confidence            34569999999999999999999999988777777776554 45567788889999999999988 77888899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC-CHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAF  170 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~  170 (222)
                      |+|||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..+++..++...+++++++||++|. |++++|
T Consensus       103 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~  182 (196)
T 2atv_A          103 VLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIF  182 (196)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHH
Confidence            99999999999999999998887754 3578999999999998777888899999999999999999999999 999999


Q ss_pred             HHHHHHHHHHh
Q 040481          171 EIVIREIYSNV  181 (222)
Q Consensus       171 ~~i~~~~~~~~  181 (222)
                      ++|++.+.+..
T Consensus       183 ~~l~~~i~~~~  193 (196)
T 2atv_A          183 YELCREVRRRR  193 (196)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhhc
Confidence            99999887654

>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=100.00  E-value=3.4e-31  Score=200.20  Aligned_cols=166  Identities=30%  Similarity=0.510  Sum_probs=145.1

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +....++|+++|+++||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   92 (194)
T 2atx_A           14 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   92 (194)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCE
Confidence            456779999999999999999999999988777777766554 4456677788899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEE
Q 040481           92 ALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFME  157 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~  157 (222)
                      +|+|||++++.+|+.+. .|+..+.... .++|+++|+||+|+.+.            +.+..+++.+++...++ ++++
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  171 (194)
T 2atx_A           93 FLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVE  171 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEE
Confidence            99999999999999997 7998887764 36899999999999753            46778889999999987 8999


Q ss_pred             EccCCCCCHHHHHHHHHHHHHH
Q 040481          158 TSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      +||++|.|++++|++|++.+++
T Consensus       172 ~Sa~~g~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          172 CSALTQKGLKTVFDEAIIAILT  193 (194)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHC
T ss_pred             eeCCCCCCHHHHHHHHHHHHhc
Confidence            9999999999999999987763

>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=100.00  E-value=1.1e-30  Score=196.68  Aligned_cols=171  Identities=35%  Similarity=0.545  Sum_probs=135.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +....++|+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||.+.+...+..++..+|+
T Consensus        17 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   95 (190)
T 3con_A           17 QGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEG   95 (190)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC-----------CTTCSE
T ss_pred             cccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCE
Confidence            345669999999999999999999999887766666655443 4566778888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +++|||+++..+++.+..|+..+..... .++|+++|+||+|+.+ +....+++.+++...+++++++||+++.|++++|
T Consensus        96 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  174 (190)
T 3con_A           96 FLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAF  174 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999999999988876543 5689999999999976 5677888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q 040481          171 EIVIREIYSNVSRK  184 (222)
Q Consensus       171 ~~i~~~~~~~~~~~  184 (222)
                      ++|++.+.+.+.++
T Consensus       175 ~~l~~~~~~~~~~~  188 (190)
T 3con_A          175 YTLVREIRQYRMKK  188 (190)
T ss_dssp             HHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999888765543

>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=99.98  E-value=2.1e-31  Score=199.90  Aligned_cols=166  Identities=31%  Similarity=0.540  Sum_probs=142.3

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....++|+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus         3 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   81 (184)
T 1m7b_A            3 NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDA   81 (184)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             CCceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcE
Confidence            345679999999999999999999999988777777776555 3456677888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEE
Q 040481           92 ALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEG-LFFME  157 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~  157 (222)
                      +|+|||++++.+|+.+ ..|+..+.... ...|+++|+||+|+.+.            +.+..+++..++..++ ++|++
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  160 (184)
T 1m7b_A           82 VLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIE  160 (184)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEE
Confidence            9999999999999998 78988887654 46899999999999742            5678888999999887 78999


Q ss_pred             EccC-CCCCHHHHHHHHHHHHHH
Q 040481          158 TSAL-DSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       158 ~sa~-~~~~i~~~~~~i~~~~~~  179 (222)
                      +||+ ++.|++++|+.+++.+++
T Consensus       161 ~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          161 CSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             CBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             eeecCCCcCHHHHHHHHHHHHhc
Confidence            9999 689999999999987763

>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=99.98  E-value=4e-31  Score=198.00  Aligned_cols=165  Identities=30%  Similarity=0.537  Sum_probs=143.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   81 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEE
Confidence            3568999999999999999999999888777777765444 455677888999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEc
Q 040481           94 IVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETS  159 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~s  159 (222)
                      +|||++++.+|+.+. .|+..+..... +.|+++|+||+|+.+.            +.+..++...++...++ +++++|
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  160 (186)
T 1mh1_A           82 ICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  160 (186)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHST-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCChhhHHHHHHHHHHHHHHhCC-CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEec
Confidence            999999999999996 79888877654 7899999999998653            46777888889999987 999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHH
Q 040481          160 ALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~~~~  180 (222)
                      |++|.|++++|+++++.+.+.
T Consensus       161 a~~g~gi~~l~~~l~~~~~~~  181 (186)
T 1mh1_A          161 ALTQRGLKTVFDEAIRAVLCP  181 (186)
T ss_dssp             TTTCTTHHHHHHHHHHHHSCC
T ss_pred             CCCccCHHHHHHHHHHHHhcc
Confidence            999999999999999887644

>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=99.98  E-value=3.9e-31  Score=203.28  Aligned_cols=168  Identities=29%  Similarity=0.502  Sum_probs=124.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ....++|+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++
T Consensus        31 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  109 (214)
T 2j1l_A           31 GVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVL  109 (214)
T ss_dssp             -CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEE
T ss_pred             CcceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEE
Confidence            34579999999999999999999999887777777765443 45567788889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEE
Q 040481           93 LIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMET  158 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~  158 (222)
                      |+|||++++.+|+.+. .|+..+.... .++|+++|+||+|+...            +.+..+++..++...++ +++++
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  188 (214)
T 2j1l_A          110 LLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLEC  188 (214)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEe
Confidence            9999999999999996 7988887654 46899999999999754            26777888899999997 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHHhh
Q 040481          159 SALDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      ||++|.|++++|++|++.+++...
T Consensus       189 SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          189 SARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             cCCCCCCHHHHHHHHHHHHHHhhc
Confidence            999999999999999998886543

>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=99.98  E-value=1.2e-31  Score=206.43  Aligned_cols=173  Identities=27%  Similarity=0.472  Sum_probs=146.4

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      ......+||+++|++|||||||+++|++..+...+.++.+.......+... +..+.+.+||+||++.+...+..++..+
T Consensus         6 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (218)
T 4djt_A            6 ERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGA   85 (218)
T ss_dssp             ----CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTC
T ss_pred             ccccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcC
Confidence            345677999999999999999999999888777667777766666655454 3448899999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |++|+|||++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..+.+..++...+++++++||++|.|++++
T Consensus        86 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l  165 (218)
T 4djt_A           86 SGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLP  165 (218)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHH
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHH
Confidence            99999999999999999999999998877777899999999999887788888888999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhh
Q 040481          170 FEIVIREIYSNVSR  183 (222)
Q Consensus       170 ~~~i~~~~~~~~~~  183 (222)
                      |.+|.+.+.+....
T Consensus       166 ~~~l~~~~~~~~~~  179 (218)
T 4djt_A          166 FLHLARIFTGRPDL  179 (218)
T ss_dssp             HHHHHHHHHCCTTC
T ss_pred             HHHHHHHHhccccc
Confidence            99999988765443

>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=99.98  E-value=5.7e-31  Score=201.18  Aligned_cols=166  Identities=31%  Similarity=0.544  Sum_probs=142.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....+||+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|+
T Consensus        24 ~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~  102 (205)
T 1gwn_A           24 NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDA  102 (205)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCE
Confidence            345679999999999999999999999988777777776655 3456667788999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEE
Q 040481           92 ALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEG-LFFME  157 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~~  157 (222)
                      +|+|||++++.+|+.+ ..|+..+.... ...|+++|+||+|+.+            .+.+..+++.+++...+ ++|++
T Consensus       103 ~ilv~D~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  181 (205)
T 1gwn_A          103 VLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIE  181 (205)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEE
Confidence            9999999999999999 78988887764 4689999999999974            25677888899998887 78999


Q ss_pred             EccC-CCCCHHHHHHHHHHHHHH
Q 040481          158 TSAL-DSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       158 ~sa~-~~~~i~~~~~~i~~~~~~  179 (222)
                      +||+ ++.|++++|..+++.++.
T Consensus       182 ~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          182 CSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             CCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             eeeccCCcCHHHHHHHHHHHHhh
Confidence            9999 689999999999988764

>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=99.97  E-value=3.9e-30  Score=188.71  Aligned_cols=162  Identities=35%  Similarity=0.570  Sum_probs=141.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .++|+++|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            57999999999999999999999887766666655433 45566788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ||++++.+++.+..|+..+..... .+.|+++|+||+|+.+ +....++..+++...+++++++||++|.|++++|.++.
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  160 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999988876543 4689999999999976 56777888899999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          175 REIYS  179 (222)
Q Consensus       175 ~~~~~  179 (222)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T 2ce2_X          161 REIRQ  165 (166)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            87753

>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=99.97  E-value=3.9e-30  Score=195.73  Aligned_cols=164  Identities=31%  Similarity=0.518  Sum_probs=143.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ....+||+++|++|||||||+++|.+..+...+.++.+.++. ..+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  100 (201)
T 2gco_A           22 AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVI  100 (201)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEE
Confidence            356789999999999999999999999887777777766654 3466788889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEE
Q 040481           93 LIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMET  158 (222)
Q Consensus        93 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~  158 (222)
                      |+|||++++.+|+.+ ..|+..+.... .+.|+++|+||+|+.+.            +.+..+++..++...++ +++++
T Consensus       101 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  179 (201)
T 2gco_A          101 LMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLEC  179 (201)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEe
Confidence            999999999999999 67888887754 46899999999999754            45777888899999888 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHHH
Q 040481          159 SALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ||++|.|++++|++|++.++
T Consensus       180 SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          180 SAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             CTTTCTTHHHHHHHHHHHHH
T ss_pred             eCCCCCCHHHHHHHHHHHHh
Confidence            99999999999999998775

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=1.2e-30  Score=192.83  Aligned_cols=162  Identities=28%  Similarity=0.432  Sum_probs=140.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|++|+|||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            3589999999999999999999998877666676654443 445667888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |||++++.+++.+..|+..+.....  .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  160 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHH
Confidence            9999999999999888887766532  46899999999999877778888888899999999999999999999999999


Q ss_pred             HHHHH
Q 040481          173 VIREI  177 (222)
Q Consensus       173 i~~~~  177 (222)
                      |++.+
T Consensus       161 l~~~~  165 (172)
T 2erx_A          161 LLNLE  165 (172)
T ss_dssp             HHHTC
T ss_pred             HHHHH
Confidence            88754

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.97  E-value=2.1e-33  Score=213.43  Aligned_cols=167  Identities=47%  Similarity=0.847  Sum_probs=142.4

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .+..+||+++|+++||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus        30 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  109 (199)
T 3l0i_B           30 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGI  109 (199)
T ss_dssp             CSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEE
Confidence            46779999999999999999999999888777778888888888898999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+|+.+..|+..+.......+|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~  189 (199)
T 3l0i_B          110 IVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMT  189 (199)
T ss_dssp             EECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHH
Confidence            99999999999999999999998887778999999999999877777777788899999999999999999999999999


Q ss_pred             HHHHHHH
Q 040481          173 VIREIYS  179 (222)
Q Consensus       173 i~~~~~~  179 (222)
                      |++.+.+
T Consensus       190 l~~~l~~  196 (199)
T 3l0i_B          190 MAAEIKK  196 (199)
T ss_dssp             HTTTTTT
T ss_pred             HHHHHHH
Confidence            8876643

>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=99.97  E-value=5.2e-30  Score=193.88  Aligned_cols=167  Identities=28%  Similarity=0.394  Sum_probs=136.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcC--CCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-hhhhHHHhhcCCC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEF--NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-FRAVTSAYYRGAV   90 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d   90 (222)
                      ...+||+++|++|||||||+++|.+...  ...+ ++++.+.....+.+++..+.+.+||++|.+. +..+...+++.+|
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~   82 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD   82 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCC
Confidence            4568999999999999999999986432  3333 3456666677788899999999999999766 4556677888999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ++|+|||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++|++|||++|.||+++
T Consensus        83 ~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~l  162 (192)
T 2cjw_A           83 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKEL  162 (192)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHH
Confidence            9999999999999999999988776653 357899999999999876778888888888889999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 040481          170 FEIVIREIYSNV  181 (222)
Q Consensus       170 ~~~i~~~~~~~~  181 (222)
                      |+++++.+....
T Consensus       163 f~~l~~~~~~~~  174 (192)
T 2cjw_A          163 FEGIVRQVRLRR  174 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc
Confidence            999999876443

>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=99.97  E-value=4.9e-31  Score=199.30  Aligned_cols=168  Identities=22%  Similarity=0.287  Sum_probs=137.5

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC-----------CCccceeEEEEEE-EECCeEEEEEEEeCCCcchh
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-----------KATIGVEFQTQSM-EIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~-----------~~~~~~~~~~~~~-~~~~~~~~~~i~D~~G~~~~   78 (222)
                      ......+||+++|++|||||||++.+.+.. ...+           .++.+.++....+ .+++..+.+.+||+||++.+
T Consensus         9 ~~~~~~~ki~vvG~~~~GKssL~~~l~~~~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~   87 (198)
T 3t1o_A            9 ANREINFKIVYYGPGLSGKTTNLKWIYSKV-PEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFY   87 (198)
T ss_dssp             TTTEEEEEEEEECSTTSSHHHHHHHHHHTS-CGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSC
T ss_pred             hccccccEEEEECCCCCCHHHHHHHHHhhc-cccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHH
Confidence            356778999999999999999997776543 3332           2343444433333 45677889999999999999


Q ss_pred             hhhHHHhhcCCCEEEEEEECC------ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC
Q 040481           79 RAVTSAYYRGAVGALIVYDIT------RRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG  152 (222)
Q Consensus        79 ~~~~~~~~~~~d~vi~v~d~~------~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~  152 (222)
                      ...+..+++.+|++|+|||++      +..+|..+..|+..+. ....++|+++|+||+|+.+  .+..+++.+++...+
T Consensus        88 ~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~-~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~  164 (198)
T 3t1o_A           88 NASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG-LTLDDVPIVIQVNKRDLPD--ALPVEMVRAVVDPEG  164 (198)
T ss_dssp             SHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTT-CCTTSSCEEEEEECTTSTT--CCCHHHHHHHHCTTC
T ss_pred             HHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhc-cccCCCCEEEEEEchhccc--ccCHHHHHHHHHhcC
Confidence            999999999999999999999      5677888888888873 2346789999999999975  377888999999999


Q ss_pred             C-eEEEEccCCCCCHHHHHHHHHHHHHHHhh
Q 040481          153 L-FFMETSALDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       153 ~-~~~~~sa~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      + +++++||++|.|++++|++|++.+.+...
T Consensus       165 ~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          165 KFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             CSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             CceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            9 99999999999999999999998887654

>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=99.97  E-value=4.2e-30  Score=196.42  Aligned_cols=165  Identities=30%  Similarity=0.507  Sum_probs=138.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.+..+...+.++.+..+.. .+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEE-EEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEE-EEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEE
Confidence            456899999999999999999999998877777776655543 3667888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEc
Q 040481           94 IVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETS  159 (222)
Q Consensus        94 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~s  159 (222)
                      +|||++++.+|+.+ ..|+..+.... .+.|+++|+||+|+.+.            +.+..++...++...++ +++++|
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (207)
T 2fv8_A          102 MCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECS  180 (207)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEee
Confidence            99999999999999 67888887654 46899999999999754            45777888889999887 899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHH
Q 040481          160 ALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~~~~  180 (222)
                      |++|.|++++|++|++.+++.
T Consensus       181 A~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          181 AKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             TTTCTTHHHHHHHHHHHHHSC
T ss_pred             CCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999987743

>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=99.97  E-value=1.5e-31  Score=199.88  Aligned_cols=163  Identities=32%  Similarity=0.577  Sum_probs=125.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|+|||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            45689999999999999999999998877666666553332 23445666788889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----------CCHHHHHHHHHHcCC-eEEEEccC
Q 040481           94 IVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIRN----------VSTEEGKSLAEAEGL-FFMETSAL  161 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~sa~  161 (222)
                      +|||++++.+|+.+. .|+..+.... .+.|+++|+||+|+.+...          +..+++.+++...++ +++++||+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  163 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSK  163 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECC
Confidence            999999999999997 7998887765 3689999999999865433          477788889998886 89999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIREIY  178 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~~  178 (222)
                      +|.|++++|+++++.++
T Consensus       164 ~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          164 SQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             TCTTHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHHh
Confidence            99999999999988764

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.97  E-value=2.8e-29  Score=190.73  Aligned_cols=169  Identities=63%  Similarity=1.037  Sum_probs=150.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++.+...+..+++.+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            45789999999999999999999999888888888888888888889999999999999999999888889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|+|+.+..+++.+..|+..+........|+++++||.|+.+......++++.++...++.++++||+++.|+.++|+++
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l  162 (199)
T 2f9l_A           83 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI  162 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999998889988876655678999999999998777788888999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q 040481          174 IREIYSNVS  182 (222)
Q Consensus       174 ~~~~~~~~~  182 (222)
                      .+.+.+...
T Consensus       163 ~~~~~~~~~  171 (199)
T 2f9l_A          163 LTEIYRIVS  171 (199)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            998876543

>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=99.97  E-value=9.4e-31  Score=201.92  Aligned_cols=169  Identities=28%  Similarity=0.532  Sum_probs=148.6

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      ......+||+++|++|||||||+++|+.+.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|
T Consensus        10 ~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   89 (221)
T 3gj0_A           10 GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQ   89 (221)
T ss_dssp             TCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCC
T ss_pred             CCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCC
Confidence            35567799999999999999999998887777777788888888888889999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      ++|+|||++++.+|..+..|+..+.... .++|+++|+||+|+.+... . .+...++...+++++++||++|.|++++|
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~-~-~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  166 (221)
T 3gj0_A           90 CAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKV-K-AKSIVFHRKKNLQYYDISAKSNYNFEKPF  166 (221)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCSS-C-GGGCCHHHHHTCEEEECBGGGTBTTTHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCccccccc-c-HHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999999999999998765 4689999999999975332 2 25566788889999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q 040481          171 EIVIREIYSNVS  182 (222)
Q Consensus       171 ~~i~~~~~~~~~  182 (222)
                      .+|.+.+.....
T Consensus       167 ~~l~~~l~~~~~  178 (221)
T 3gj0_A          167 LWLARKLIGDPN  178 (221)
T ss_dssp             HHHHHHHHTCTT
T ss_pred             HHHHHHHHhCcc
Confidence            999998876543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.97  E-value=1.5e-30  Score=197.07  Aligned_cols=168  Identities=18%  Similarity=0.316  Sum_probs=129.0

Q ss_pred             CCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc
Q 040481            9 GGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR   87 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   87 (222)
                      ...+....++|+|+|+++||||||+++|++..+.. .+.++.+...  ..+.  ...+.+.+||+||++.+...+..+++
T Consensus        10 ~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~--~~~~--~~~~~~~i~Dt~G~~~~~~~~~~~~~   85 (199)
T 4bas_A           10 HMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV--ETFE--KGRVAFTVFDMGGAKKFRGLWETYYD   85 (199)
T ss_dssp             ------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE--EEEE--ETTEEEEEEEECCSGGGGGGGGGGCT
T ss_pred             cccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE--EEEE--eCCEEEEEEECCCCHhHHHHHHHHHh
Confidence            44567778999999999999999999999998877 6677776433  3333  34567889999999999999999999


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCC--------CCCcEEEEEeCCCCCcCCCCCHHHHH-H-----HHHHcCC
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSD--------TTVARMLVGNKCDLESIRNVSTEEGK-S-----LAEAEGL  153 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~--------~~~p~iiv~nK~Dl~~~~~~~~~~~~-~-----~~~~~~~  153 (222)
                      .+|++|+|||++++.+|+.+..|+..+.....        ..+|+++|+||+|+.+...  .++.. .     ++...++
T Consensus        86 ~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~  163 (199)
T 4bas_A           86 NIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHPF  163 (199)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSCE
T ss_pred             cCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCee
Confidence            99999999999999999999999888766421        2689999999999975422  22221 1     1144678


Q ss_pred             eEEEEccCCCCCHHHHHHHHHHHHHHHhh
Q 040481          154 FFMETSALDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       154 ~~~~~sa~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      +++++||++|.||+++|++|++.+.+...
T Consensus       164 ~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~  192 (199)
T 4bas_A          164 VIFASNGLKGTGVHEGFSWLQETASRQSG  192 (199)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             EEEEeeCCCccCHHHHHHHHHHHHHHHhc
Confidence            89999999999999999999998876643

>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=99.97  E-value=3.4e-30  Score=196.58  Aligned_cols=163  Identities=29%  Similarity=0.530  Sum_probs=138.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ....+||+++|++|||||||+++|.++.+...+.++.+ +.....+.+++..+.+.+||+||++.+...+..+++.+|++
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  105 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVF  105 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            35669999999999999999999999888777777754 44455666788889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHcCC-eEEEE
Q 040481           93 LIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIR------------NVSTEEGKSLAEAEGL-FFMET  158 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~  158 (222)
                      |+|||++++.+|+.+. .|+..+.... .+.|+++|+||+|+.+..            .+..+++..++...++ +++++
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  184 (204)
T 4gzl_A          106 LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  184 (204)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEe
Confidence            9999999999999996 7988887765 568999999999986543            3777888889999886 59999


Q ss_pred             ccCCCCCHHHHHHHHHHHH
Q 040481          159 SALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~~  177 (222)
                      ||++|.|++++|+++++.+
T Consensus       185 SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          185 SALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             CTTTCTTHHHHHHHHHHTT
T ss_pred             eCCCCCCHHHHHHHHHHHh
Confidence            9999999999999998754

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.97  E-value=2.1e-28  Score=184.80  Aligned_cols=165  Identities=63%  Similarity=1.053  Sum_probs=149.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .+..++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.++++
T Consensus        26 ~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~  105 (191)
T 1oix_A           26 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGA  105 (191)
T ss_dssp             CSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEE
Confidence            45679999999999999999999999988888889989898888999999999999999999999888888999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      ++|+|+.+..+|+.+..|+..+........|+++++||.|+.+......++++.++...++.++++||+++.++.++|+.
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~  185 (191)
T 1oix_A          106 LLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQT  185 (191)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999888988877655566899999999999877777888899999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          173 VIREI  177 (222)
Q Consensus       173 i~~~~  177 (222)
                      +.+.+
T Consensus       186 l~~~i  190 (191)
T 1oix_A          186 ILTEI  190 (191)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            88764

>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=99.96  E-value=8e-30  Score=191.99  Aligned_cols=160  Identities=20%  Similarity=0.356  Sum_probs=127.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.+..+...+.++.+.++..  +...  .+.+.+||+||++.+...+..+++.+|++|
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   95 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAIV   95 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EEeC--CEEEEEEECCCCHhHHHHHHHHHccCCEEE
Confidence            456899999999999999999999988877777777765543  3333  467889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.  ...++..+...     ..+++++++||++|.|++
T Consensus        96 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~  173 (188)
T 1zd9_A           96 YMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA--LDEKELIEKMNLSAIQDREICCYSISCKEKDNID  173 (188)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC--CCHHHHHHHhChhhhccCCeeEEEEECCCCCCHH
Confidence            9999999999999999988876543 267899999999999753  22222222211     235679999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYS  179 (222)
Q Consensus       168 ~~~~~i~~~~~~  179 (222)
                      ++|++|++.+.+
T Consensus       174 ~l~~~l~~~~~~  185 (188)
T 1zd9_A          174 ITLQWLIQHSKS  185 (188)
T ss_dssp             HHHHHHHHTCC-
T ss_pred             HHHHHHHHHHHh
Confidence            999999886543

>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=99.96  E-value=2.8e-29  Score=185.50  Aligned_cols=159  Identities=23%  Similarity=0.325  Sum_probs=125.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|+|||||+++|.+..+.. +.++.+  .....+.++  .+.+.+||+||++.+...+..+++.+|++|
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   79 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIG--FNVETVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVI   79 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSS--EEEEEEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCc--cceEEEEEC--CEEEEEEECCCChhhhHHHHHHhccCCEEE
Confidence            346899999999999999999999887643 445544  344455555  466889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHH-----HHHcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSL-----AEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|..+..|+..+.... ..+.|+++|+||+|+.+..  ...+....     +...+++++++||++|.|++
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  157 (171)
T 1upt_A           80 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM--TSSEMANSLGLPALKDRKWQIFKTSATKGTGLD  157 (171)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCC--CHHHHHHHhCchhccCCceEEEECcCCCCcCHH
Confidence            9999999999999988887776543 2568999999999997532  22222211     22346689999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYS  179 (222)
Q Consensus       168 ~~~~~i~~~~~~  179 (222)
                      ++|+++.+.+.+
T Consensus       158 ~l~~~l~~~i~~  169 (171)
T 1upt_A          158 EAMEWLVETLKS  169 (171)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhh
Confidence            999999987753

>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=99.96  E-value=6.2e-30  Score=187.90  Aligned_cols=156  Identities=19%  Similarity=0.365  Sum_probs=121.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.+..+.. +.|+.+.  ....+..  ..+.+.+||+||++.+...+..+++.+|++|+||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGF--NVETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSC--CEEEEEC--SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCce--eEEEEEE--CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999877653 4555552  3333333  3467889999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEEccCCCCCHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      |++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+.  ...++.....     ...+++++++||++|.|++++|
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC--CCHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            9999999999999988876542 356899999999999753  2222222211     1234679999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          171 EIVIREIYS  179 (222)
Q Consensus       171 ~~i~~~~~~  179 (222)
                      +++.+.+.+
T Consensus       154 ~~l~~~i~~  162 (164)
T 1r8s_A          154 DWLSNQLRN  162 (164)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHhh
Confidence            999887653

>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=99.96  E-value=1.9e-28  Score=184.63  Aligned_cols=162  Identities=19%  Similarity=0.333  Sum_probs=128.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCc-CCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNE-FNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      .....++|+++|++|||||||+++|.+.. +...+.++.+  +....+.+++  +.+.+||+||++.+...+..+++.+|
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d   92 (190)
T 2h57_A           17 RGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQ   92 (190)
T ss_dssp             ----CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCS
T ss_pred             CCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCC
Confidence            34456899999999999999999999887 4455556555  4445555554  67889999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCC
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSD---TTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALD  162 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~  162 (222)
                      ++|+|||++++.+|+.+..|+..+.....   .+.|+++|+||+|+.+  ....+++.++..     ..+++++++||++
T Consensus        93 ~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  170 (190)
T 2h57_A           93 AIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD--AVTSVKVSQLLCLENIKDKPWHICASDAIK  170 (190)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTT
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc--CCCHHHHHHHhChhhccCCceEEEEccCCC
Confidence            99999999999999999999888876543   4789999999999974  344555555553     2357899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIREIYS  179 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~~~  179 (222)
                      |.|++++|++|.+.+.+
T Consensus       171 ~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          171 GEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             TBTHHHHHHHHHHHC--
T ss_pred             CcCHHHHHHHHHHHHHH
Confidence            99999999999886643

>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=99.96  E-value=6.2e-29  Score=188.78  Aligned_cols=156  Identities=21%  Similarity=0.266  Sum_probs=121.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.+..+. .+.++.+..  ...+.+++  +.+.+||+||++.+...+..+++.+|++|
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   97 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   97 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEE
Confidence            34579999999999999999999987764 344555443  34555666  67889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----------------cCCeE
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-----------------EGLFF  155 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----------------~~~~~  155 (222)
                      +|||++++.+|+.+..|+..+.... ..++|+++|+||+|+..  .+..+++.+++..                 .++++
T Consensus        98 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (198)
T 1f6b_A           98 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  175 (198)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEE
Confidence            9999999999999999998886653 35789999999999975  5666777766552                 34679


Q ss_pred             EEEccCCCCCHHHHHHHHHHH
Q 040481          156 METSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       156 ~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ++|||++|.|++++|++|.+.
T Consensus       176 ~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          176 FMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             EECBTTTTBSHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            999999999999999998753

>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=99.96  E-value=1.6e-28  Score=185.33  Aligned_cols=156  Identities=21%  Similarity=0.247  Sum_probs=126.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      .+.++|+++|++|||||||+++|.+..+. .+.++.+.  ....+.+++  +.+.+||+||++.+...+..+++.+|++|
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   95 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHP--TSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIV   95 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSC--EEEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCC--CeEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            44579999999999999999999988764 34455544  345566666  67889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH------------cCCeEEEEcc
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA------------EGLFFMETSA  160 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~sa  160 (222)
                      +|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+  .+..+++.++...            .+++++++||
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  173 (190)
T 1m2o_B           96 FLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSV  173 (190)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBT
T ss_pred             EEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeEC
Confidence            9999999999999999998886543 35689999999999975  4556666655432            3567999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 040481          161 LDSTNVKSAFEIVIRE  176 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~  176 (222)
                      ++|.|++++|+++++.
T Consensus       174 ~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          174 VMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTTBSHHHHHHHHHTT
T ss_pred             CcCCCHHHHHHHHHhh
Confidence            9999999999998753

>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=99.96  E-value=3e-28  Score=182.76  Aligned_cols=160  Identities=21%  Similarity=0.361  Sum_probs=128.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.+.. ...+.++.+.  ....+.+++  +.+.+||+||++.+...+..+++.+|++|
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~--~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGF--NIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSE--EEEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCcc--ceEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            567999999999999999999999887 5556666653  344455554  67889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+..  ..++..+...     ..+++++++||++|.|++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLL  168 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCC--CHHHHHHHhChhhccCCceEEEEeeCCCCCCHH
Confidence            9999999999999999888776642 3568999999999997532  2333332222     245689999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYSN  180 (222)
Q Consensus       168 ~~~~~i~~~~~~~  180 (222)
                      ++|+++.+.+.++
T Consensus       169 ~l~~~l~~~i~~~  181 (186)
T 1ksh_A          169 PGIDWLLDDISSR  181 (186)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999877643

>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=99.96  E-value=2.9e-29  Score=189.65  Aligned_cols=158  Identities=20%  Similarity=0.366  Sum_probs=119.0

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.++.+.. +.++.+  +....+...+  +.+.+||+||.+.+...+..+++.+|++|
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii  101 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGLI  101 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETT--EEEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCc--eeEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            456899999999999999999998877542 344444  3444444443  67889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+.  ...+++.+..     ...+++++++||++|.|++
T Consensus       102 lv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~  179 (192)
T 2b6h_A          102 FVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA--MPVSELTDKLGLQHLRSRTWYVQATCATQGTGLY  179 (192)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEECcCCCcCCHH
Confidence            9999999999999999988876543 356899999999999753  2222222211     1234579999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          168 SAFEIVIREIY  178 (222)
Q Consensus       168 ~~~~~i~~~~~  178 (222)
                      ++|++|++.+.
T Consensus       180 ~l~~~l~~~i~  190 (192)
T 2b6h_A          180 DGLDWLSHELS  190 (192)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            99999988664

>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=99.96  E-value=4.3e-28  Score=181.52  Aligned_cols=159  Identities=23%  Similarity=0.345  Sum_probs=123.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.+..+ ..+.++.+.  ....+.++  .+.+.+||+||++.+...+..+++.+|++|
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~--~~~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGF--NIKSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTE--EEEEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCe--EEEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4568999999999999999999998754 233455553  34445555  467889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|+.+..|+..+... ...+.|+++|+||+|+.+..  ..++..+..     ...+++++++||++|.|++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA--PASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQ  166 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCC--CHHHHHHHhCchhccCCceEEEEccCCCCCCHH
Confidence            999999999999999888877554 23568999999999997543  223332221     1235679999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYS  179 (222)
Q Consensus       168 ~~~~~i~~~~~~  179 (222)
                      ++|+++++.+.+
T Consensus       167 ~l~~~l~~~~~~  178 (181)
T 1fzq_A          167 DGMNWVCKNVNA  178 (181)
T ss_dssp             HHHHHHHHTC--
T ss_pred             HHHHHHHHHHHh
Confidence            999999887654

>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=99.96  E-value=6.2e-28  Score=181.30  Aligned_cols=160  Identities=21%  Similarity=0.358  Sum_probs=123.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.++.+. .+.++.+..  ...+.+++  +.+.+||+||++.+...+..+++.+|++|
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   88 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   88 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            34689999999999999999999987765 444555433  33444554  67889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+  ....+++.+...     ..+++++++||++|.|++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (187)
T 1zj6_A           89 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE--CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLC  166 (187)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcC--CCCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHH
Confidence            9999999999999999998887653 25689999999999974  233444443332     245689999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYSN  180 (222)
Q Consensus       168 ~~~~~i~~~~~~~  180 (222)
                      ++|++|++.+...
T Consensus       167 ~l~~~l~~~~~~~  179 (187)
T 1zj6_A          167 QGLEWMMSRLKIR  179 (187)
T ss_dssp             HHHHHHHHHHCC-
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999876543

>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=99.96  E-value=2.4e-28  Score=182.69  Aligned_cols=160  Identities=21%  Similarity=0.348  Sum_probs=123.6

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCC
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGA   89 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   89 (222)
                      .......++|+++|++|||||||+++|.+..+ ..+.++.+...  ..+.+++  +.+.+||+||++.+...+..+++.+
T Consensus        15 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~   89 (181)
T 2h17_A           15 VPRGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNT   89 (181)
T ss_dssp             ------CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTC
T ss_pred             cCCCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccC
Confidence            34555679999999999999999999998876 33445555433  3444554  6788999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCC
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDS  163 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~  163 (222)
                      |++|+|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+.  ...+++.+...     ..+++++++||++|
T Consensus        90 d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g  167 (181)
T 2h17_A           90 EFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTG  167 (181)
T ss_dssp             CEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCC
Confidence            99999999999999999999888776643 366899999999999752  33444443332     23568999999999


Q ss_pred             CCHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIRE  176 (222)
Q Consensus       164 ~~i~~~~~~i~~~  176 (222)
                      .|++++|++|++.
T Consensus       168 ~gi~~l~~~l~~~  180 (181)
T 2h17_A          168 EGLCQGLEWMMSR  180 (181)
T ss_dssp             BTHHHHHHHHHTC
T ss_pred             cCHHHHHHHHHhh
Confidence            9999999998753

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.96  E-value=1.3e-27  Score=194.65  Aligned_cols=163  Identities=30%  Similarity=0.533  Sum_probs=142.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..++|+++|++|+|||||++++.++.+...+.++++..+ ...+.+++..+.+.+||+||.+.+...+..+++.+|++|+
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~  232 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLI  232 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEE
Confidence            458999999999999999999999888777777765444 4556778889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEEcc
Q 040481           95 VYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEGL-FFMETSA  160 (222)
Q Consensus        95 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa  160 (222)
                      |||++++.+|+.+. .|+..+..... ++|+++|+||+|+.+.            +.+..+++..++...++ +++++||
T Consensus       233 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  311 (332)
T 2wkq_A          233 CFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  311 (332)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCT-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhhCC-CCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecC
Confidence            99999999999986 78888877654 7899999999998643            56788889999999997 8999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 040481          161 LDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~~~~  179 (222)
                      ++|.|++++|..+++.++.
T Consensus       312 ~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          312 LTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             TTCTTHHHHHHHHHHHHHC
T ss_pred             CCCcCHHHHHHHHHHHHhc
Confidence            9999999999999987764

>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=99.96  E-value=3.5e-29  Score=187.89  Aligned_cols=164  Identities=21%  Similarity=0.420  Sum_probs=121.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC--cCCCCCCCccceeEEEEEEEE---CCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN--EFNPHSKATIGVEFQTQSMEI---DGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      .+||+++|++|||||||+++|.+.  .+...+.++.+.++....+..   ++..+.+.+||++|.+.+...+..+++.++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            479999999999999999999985  344556677777766555433   335678899999999999888999999999


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC---HHHHHHHHHHcCCe----EEEEccCC
Q 040481           91 GALIVYDITRR-TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS---TEEGKSLAEAEGLF----FMETSALD  162 (222)
Q Consensus        91 ~vi~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~----~~~~sa~~  162 (222)
                      ++++|||++++ .+|+.+..|+..+.... .+.|+++|+||+|+.+...+.   .+....++...+++    ++++||++
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  160 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE  160 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTS
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEeccc
Confidence            99999999998 47999999999887654 368999999999997543322   23345556566776    99999999


Q ss_pred             CC-CHHHHHHHHHHHHHHH
Q 040481          163 ST-NVKSAFEIVIREIYSN  180 (222)
Q Consensus       163 ~~-~i~~~~~~i~~~~~~~  180 (222)
                      +. ++.++++.+.+.+...
T Consensus       161 ~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          161 ESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             CCHHHHHHHHHHHHHHHCC
T ss_pred             CchhHHHHHHHHHHHHhcc
Confidence            97 9999999888766543

>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=99.96  E-value=4.6e-29  Score=189.08  Aligned_cols=166  Identities=21%  Similarity=0.218  Sum_probs=121.0

Q ss_pred             CCCCCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEE--EEEE-CCeEEEEEEEeCCCcchhhhhH-
Q 040481            7 EGGGGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQ--SMEI-DGKEVKAQIWDTAGQERFRAVT-   82 (222)
Q Consensus         7 ~~~~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~i~D~~G~~~~~~~~-   82 (222)
                      .....+....+||+++|++|||||||++++.+.... .  ++.+.+....  ...+ ++..+.+.+||+||++.+.... 
T Consensus        11 ~~~~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~-~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   87 (196)
T 3llu_A           11 RENLYFQGSKPRILLMGLRRSGKSSIQKVVFHKMSP-N--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTF   87 (196)
T ss_dssp             ---------CCEEEEEESTTSSHHHHHHHHHSCCCG-G--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTC
T ss_pred             CCCCcccCcceEEEEECCCCCCHHHHHHHHHhcCCC-c--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhh
Confidence            334466777899999999999999999988774322 2  2323222222  2223 2556789999999999987766 


Q ss_pred             --HHhhcCCCEEEEEEECCCh--hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-------CCCCCHHHHHHHHH--
Q 040481           83 --SAYYRGAVGALIVYDITRR--TTFDSISRWLDELKTHSDTTVARMLVGNKCDLES-------IRNVSTEEGKSLAE--  149 (222)
Q Consensus        83 --~~~~~~~d~vi~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~-------~~~~~~~~~~~~~~--  149 (222)
                        ..+++.+|++|+|||++++  +++..+..|+..+.... .++|+++|+||+|+.+       .+.+..++..+++.  
T Consensus        88 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~  166 (196)
T 3llu_A           88 DYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN-PDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAG  166 (196)
T ss_dssp             CHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHC-TTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcC-CCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhh
Confidence              8999999999999999997  66777777777764433 4689999999999864       23455556677777  


Q ss_pred             --HcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          150 --AEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       150 --~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                        ..+++|+++||++ .||+++|..+++.+
T Consensus       167 ~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          167 LEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             CTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             hhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence              6788999999999 99999999998764

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.92  E-value=1.3e-30  Score=198.64  Aligned_cols=162  Identities=30%  Similarity=0.547  Sum_probs=135.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++|
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL  106 (204)
Confidence            4568999999999999999999998887666666654333 344556777788899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHcCC-eEEEEc
Q 040481           94 IVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESIR------------NVSTEEGKSLAEAEGL-FFMETS  159 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~s  159 (222)
                      +|||++++.+|+.+. .|+..+..... ++|+++|+||+|+.+..            .+..+++..++...++ +++++|
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~~-~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vS  185 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  185 (204)
Confidence            999999999999986 78888776543 68999999999997533            4555667778888887 899999


Q ss_pred             cCCCCCHHHHHHHHHHHH
Q 040481          160 ALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~  177 (222)
                      |++|.|++++|++|++.+
T Consensus       186 A~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
Confidence            999999999999988765

>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=99.95  E-value=1e-27  Score=179.22  Aligned_cols=160  Identities=22%  Similarity=0.353  Sum_probs=124.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|++|||||||+++|.++.+ ..+.++.+..  ...+.+++  +.+.+||+||.+.+...+..+++.+|++|
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            4679999999999999999999998776 3444555533  34444554  67889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-----EGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.  ...+++.+....     .+++++++||++|.|++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGIT  168 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHH
Confidence            9999999999999999988887654 367899999999999753  333444333221     24579999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYSN  180 (222)
Q Consensus       168 ~~~~~i~~~~~~~  180 (222)
                      ++|++|.+.+.++
T Consensus       169 ~l~~~l~~~~~~~  181 (183)
T 1moz_A          169 EGLDWLIDVIKEE  181 (183)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.95  E-value=7.1e-29  Score=186.69  Aligned_cols=160  Identities=17%  Similarity=0.289  Sum_probs=125.0

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+++|+++||||||+++|.+..+.. +.++.+.  ....+.++  .+.+.+||+||++.+...+..+++.+|++|
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~--~~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGV--NLETLQYK--NISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTC--CEEEEEET--TEEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCce--EEEEEEEC--CEEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            356899999999999999999998776543 3455553  33344445  367889999999999888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHH-----HHHcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSL-----AEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+..  ..++..+.     +...+++++++||+++.|++
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAA--SEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLV  172 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCC--CHHHHHHHhChhhccCCceEEEEccCCCccCHH
Confidence            9999999999999988887776543 3578999999999997532  22222221     12235679999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYSN  180 (222)
Q Consensus       168 ~~~~~i~~~~~~~  180 (222)
                      ++|+++.+.+.+.
T Consensus       173 ~l~~~l~~~i~~~  185 (189)
T 2x77_A          173 EGMDWLVERLREQ  185 (189)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999887643

>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=99.95  E-value=4.9e-27  Score=173.14  Aligned_cols=153  Identities=18%  Similarity=0.189  Sum_probs=115.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh------hhHHHhhc--
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR------AVTSAYYR--   87 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--   87 (222)
                      .++|+++|++|||||||+++|.+..+.....++.+.+.....+.+++  ..+.+|||||...+.      .....++.  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            47999999999999999999998776555555555555555566665  468899999987663      34455664  


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      .+|++++|+|+++.+.   ...|+..+..   .+.|+++|+||+|+...+.+.. +...++..++++++++||++|.|++
T Consensus        81 ~~~~~i~v~D~~~~~~---~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~  153 (165)
T 2wji_A           81 KPDLVVNIVDATALER---NLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIE  153 (165)
T ss_dssp             CCSEEEEEEETTCHHH---HHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHH
T ss_pred             CCCEEEEEecCCchhH---hHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHH
Confidence            8999999999988643   3457766654   3589999999999865444433 3567888889999999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          168 SAFEIVIREI  177 (222)
Q Consensus       168 ~~~~~i~~~~  177 (222)
                      ++|+++.+.+
T Consensus       154 ~l~~~l~~~~  163 (165)
T 2wji_A          154 ELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999988754

>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=99.95  E-value=1.6e-26  Score=179.14  Aligned_cols=167  Identities=18%  Similarity=0.141  Sum_probs=120.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc------chh---hhhHHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ------ERF---RAVTSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~------~~~---~~~~~~   84 (222)
                      ...++|+++|++|||||||+++|++..+.....+..+.+.........+  ..+.+||+||.      +..   ...+..
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~  104 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTTITA  104 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHHHHH
Confidence            4568999999999999999999998876433333334444444444444  56889999998      331   122345


Q ss_pred             hhcCCCEEEEEEECCChhhHHH--HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH---HHHHHHHHcC--CeEEE
Q 040481           85 YYRGAVGALIVYDITRRTTFDS--ISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTE---EGKSLAEAEG--LFFME  157 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~---~~~~~~~~~~--~~~~~  157 (222)
                      ++..+|++|+|||++++.+|+.  ...|+..+.... ...|+++|+||+|+.+.+.+..+   ....++...+  +++++
T Consensus       105 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (228)
T 2qu8_A          105 LAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSS  183 (228)
T ss_dssp             HHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEE
T ss_pred             hhccccEEEEEEecccccCcchHHHHHHHHHHHHhh-cCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEE
Confidence            5788999999999999887652  245666665532 36899999999999876666654   4556677776  89999


Q ss_pred             EccCCCCCHHHHHHHHHHHHHHHhhh
Q 040481          158 TSALDSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                      +||++|.||+++|.+|++.+.+.+..
T Consensus       184 ~SA~~g~gi~~l~~~l~~~i~~~~~~  209 (228)
T 2qu8_A          184 FSTLTGVGVEQAKITACELLKNDQAE  209 (228)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             EecccCCCHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988776543

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=8.2e-27  Score=173.39  Aligned_cols=161  Identities=16%  Similarity=0.154  Sum_probs=119.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .....++|+++|++|||||||+++|.+..+...+.++.+.++....+.+++.  .+.+||+||++.+...+..++..+|+
T Consensus         4 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~   81 (178)
T 2lkc_A            4 MVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDI   81 (178)
T ss_dssp             TCCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCE
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCE
Confidence            3456689999999999999999999998887766666665665556666664  45699999999998888888999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-------C--CeEEEEccCC
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-------G--LFFMETSALD  162 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-------~--~~~~~~sa~~  162 (222)
                      +|+|||++++..... ..++..+   ...++|+++|+||+|+.+.   ..+.........       +  ++++++||++
T Consensus        82 ~i~v~d~~~~~~~~~-~~~l~~~---~~~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  154 (178)
T 2lkc_A           82 VILVVAADDGVMPQT-VEAINHA---KAANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKT  154 (178)
T ss_dssp             EEEEEETTCCCCHHH-HHHHHHH---GGGSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSS
T ss_pred             EEEEEECCCCCcHHH-HHHHHHH---HhCCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCC
Confidence            999999988433111 1222222   2346899999999999753   223333222222       1  5799999999


Q ss_pred             CCCHHHHHHHHHHHHHHHh
Q 040481          163 STNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~~~~~  181 (222)
                      |.|++++|++|++.+...+
T Consensus       155 ~~gv~~l~~~l~~~~~~~~  173 (178)
T 2lkc_A          155 KEGLDHLLEMILLVSEMEE  173 (178)
T ss_dssp             SHHHHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHhhhhhc
Confidence            9999999999988766543

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.94  E-value=3.1e-28  Score=192.00  Aligned_cols=168  Identities=25%  Similarity=0.343  Sum_probs=122.4

Q ss_pred             CCCCceeeEEEEEEcCC---------CCCHHHHHHHHhc---CcCCCCCCCcc-ceeEEEEE--------------EEEC
Q 040481            9 GGGGEEYLFKIVIIGDS---------AVGKSNLLSRYAR---NEFNPHSKATI-GVEFQTQS--------------MEID   61 (222)
Q Consensus         9 ~~~~~~~~~~i~i~G~~---------~~GKStli~~l~~---~~~~~~~~~~~-~~~~~~~~--------------~~~~   61 (222)
                      ........+||+++|++         |||||||+++|.+   ..+...+.+++ +.++....              ..++
T Consensus        12 ~~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~   91 (255)
T 3c5h_A           12 ENLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLED   91 (255)
T ss_dssp             TTSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC-----
T ss_pred             CCCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccC
Confidence            34456677999999999         9999999999998   45555555553 33322111              1235


Q ss_pred             CeEEEEEEEe-----------------------CCCcchhhhhHHHhhc---------------------CCCEEEEEEE
Q 040481           62 GKEVKAQIWD-----------------------TAGQERFRAVTSAYYR---------------------GAVGALIVYD   97 (222)
Q Consensus        62 ~~~~~~~i~D-----------------------~~G~~~~~~~~~~~~~---------------------~~d~vi~v~d   97 (222)
                      +..+.+.+||                       ++|++.+...+..++.                     .+|++|+|||
T Consensus        92 ~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D  171 (255)
T 3c5h_A           92 CVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGID  171 (255)
T ss_dssp             ----CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEE
T ss_pred             CcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEE
Confidence            6678899999                       5555555556666666                     7999999999


Q ss_pred             CCCh--hhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEEccCCCCCHHHHHHHH
Q 040481           98 ITRR--TTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-EGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        98 ~~~~--~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      ++++  .+|+.+..|+..+... ...++|+++|+||+|+.+.+.+  +++..++.. .+++++++||++|.|++++|++|
T Consensus       172 ~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l  249 (255)
T 3c5h_A          172 VSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTL  249 (255)
T ss_dssp             CBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHH
T ss_pred             CCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHH
Confidence            9998  9999999999888765 3356899999999999754443  466777776 48899999999999999999999


Q ss_pred             HHHHH
Q 040481          174 IREIY  178 (222)
Q Consensus       174 ~~~~~  178 (222)
                      ++.+.
T Consensus       250 ~~~l~  254 (255)
T 3c5h_A          250 VQLID  254 (255)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            88653

>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=99.94  E-value=3.2e-27  Score=181.10  Aligned_cols=160  Identities=13%  Similarity=0.175  Sum_probs=113.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe-EEEEEEEeCCCcchhhh-hHHHhhcCCCE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK-EVKAQIWDTAGQERFRA-VTSAYYRGAVG   91 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~-~~~~~~~~~d~   91 (222)
                      ...++|+++|++|||||||+++|++..+...+.++ +.++..  +.+++. .+.+.+||+||++.+.. .+..+++.+|+
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   81 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSI-TDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARA   81 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCC-SCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCc-ceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCE
Confidence            45689999999999999999999998876665543 333333  555543 57889999999999987 78889999999


Q ss_pred             EEEEEECCChh-hHHHHHH-HHHHHHh--cCCCCCcEEEEEeCCCCCcCCCCCH--HHHHH-------------------
Q 040481           92 ALIVYDITRRT-TFDSISR-WLDELKT--HSDTTVARMLVGNKCDLESIRNVST--EEGKS-------------------  146 (222)
Q Consensus        92 vi~v~d~~~~~-s~~~~~~-~~~~i~~--~~~~~~p~iiv~nK~Dl~~~~~~~~--~~~~~-------------------  146 (222)
                      +|+|||+++.. ++..+.. |...+..  ....++|+++|+||+|+........  +.+..                   
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~  161 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSS  161 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC---------
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCC
Confidence            99999999854 4555544 4444433  2345689999999999975432110  01111                   


Q ss_pred             -------------HHH-Hc--CCeEEEEccCCC------CCHHHHHHHHHHH
Q 040481          147 -------------LAE-AE--GLFFMETSALDS------TNVKSAFEIVIRE  176 (222)
Q Consensus       147 -------------~~~-~~--~~~~~~~sa~~~------~~i~~~~~~i~~~  176 (222)
                                   |+. .+  ++.|++|||++|      .||+++|++|.+.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          162 STAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             ---CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             ccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                         111 11  667999999999      9999999998864

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.94  E-value=1.2e-26  Score=187.42  Aligned_cols=163  Identities=18%  Similarity=0.267  Sum_probs=126.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-----hhhHHHhhcC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-----RAVTSAYYRG   88 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~   88 (222)
                      ..+||+++|++|||||||+++|+++..... ..+..+.+.....+.+++ .+.+.+||+||++.+     ...+..+++.
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~   80 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIFQM   80 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEEEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHhcc
Confidence            358999999999999999999988743221 122223344444555544 578999999999888     6788899999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCc--CCC----CCHHHHHHHHHHcC---CeEEE
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHS--DTTVARMLVGNKCDLES--IRN----VSTEEGKSLAEAEG---LFFME  157 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~iiv~nK~Dl~~--~~~----~~~~~~~~~~~~~~---~~~~~  157 (222)
                      +|++|+|||++++.+|+.+..|...+....  ..++|+++|+||+|+.+  .+.    +..+++.+++..++   +++++
T Consensus        81 ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~  160 (307)
T 3r7w_A           81 VQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFP  160 (307)
T ss_dssp             CSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEEEE
T ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEEEE
Confidence            999999999999999999977765554332  25689999999999975  333    55577788888887   78999


Q ss_pred             EccCCCCCHHHHHHHHHHHHHH
Q 040481          158 TSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      +||++ .++.++|..+++.+..
T Consensus       161 tSa~~-~~i~e~~~~iv~~li~  181 (307)
T 3r7w_A          161 TSIWD-ESLYKAWSQIVCSLIP  181 (307)
T ss_dssp             CCTTS-SHHHHHHHHHHHTTCS
T ss_pred             eeecC-ChHHHHHHHHHHHHcC
Confidence            99999 8999999988876543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.94  E-value=4.7e-27  Score=191.58  Aligned_cols=159  Identities=18%  Similarity=0.332  Sum_probs=118.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...++|+|+|+++||||||+++|.+..+... .++.+.  ....+...  .+.+.||||||++.+...+..+++.+|++|
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~--~~~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vi  237 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGF--NVETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLI  237 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTE--EEEEEEET--TEEEEEEECC-----CCSHHHHHTTEEEEE
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccce--EEEEEecC--cEEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            3457999999999999999999988775433 244443  33334444  467889999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEEccCCCCCHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-----AEGLFFMETSALDSTNVK  167 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  167 (222)
                      +|||++++.+|..+..|+..+.... ..++|++||+||+|+.+..  ..+++.....     ..+++++++||++|.||+
T Consensus       238 lV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~  315 (329)
T 3o47_A          238 FVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLY  315 (329)
T ss_dssp             EEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTCTTCCSSCEEEEECBTTTTBTHH
T ss_pred             EEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCccc--CHHHHHHHhchhhhhcCCCEEEEEECCCCcCHH
Confidence            9999999999999988776665443 3578999999999997533  2222222221     234579999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYS  179 (222)
Q Consensus       168 ~~~~~i~~~~~~  179 (222)
                      ++|++|++.+.+
T Consensus       316 el~~~l~~~l~~  327 (329)
T 3o47_A          316 EGLDWLSNQLRN  327 (329)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHh
Confidence            999999987653

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.94  E-value=1.5e-26  Score=173.63  Aligned_cols=158  Identities=21%  Similarity=0.234  Sum_probs=118.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC-----------cchhhhhHHHh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG-----------QERFRAVTSAY   85 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~   85 (222)
                      ++|+++|++|||||||+++|.+..+...+.++.+....  .+.+.    .+.+||+||           ++.+...+..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~--~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII--EIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCE--EEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeE--EEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            68999999999999999999998876666665443333  23333    478999999           56677777777


Q ss_pred             hcC-CCEEEEEEECCChhhHHHH-HHHHHH---------HHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe
Q 040481           86 YRG-AVGALIVYDITRRTTFDSI-SRWLDE---------LKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF  154 (222)
Q Consensus        86 ~~~-~d~vi~v~d~~~~~s~~~~-~~~~~~---------i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  154 (222)
                      ++. ++++++||++.+..++..+ ..|...         +......++|+++|+||+|+....   .+...+++..++++
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~  152 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVP  152 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCC
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhh
Confidence            777 7777777777777777776 556542         122223568999999999997644   56677888888764


Q ss_pred             -------EEEEccCCCCCHHHHHHHHHHHHHHHhhh
Q 040481          155 -------FMETSALDSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       155 -------~~~~sa~~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                             ++++||++|.|++++|+++++.+.+.+.+
T Consensus       153 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  188 (190)
T 2cxx_A          153 LSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQGR  188 (190)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC---
T ss_pred             hhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhcc
Confidence                   79999999999999999999988766544

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.94  E-value=5e-26  Score=170.75  Aligned_cols=158  Identities=17%  Similarity=0.184  Sum_probs=123.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh------hhHHHhhc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR------AVTSAYYR   87 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~   87 (222)
                      ...++|+++|++|||||||+++|.+........++.+.+.....+.+++  ..+.+||+||...+.      ..+..++.
T Consensus         5 ~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   82 (188)
T 2wjg_A            5 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYII   82 (188)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHh
Confidence            3568999999999999999999998765444555656666666666665  567899999987763      34555664


Q ss_pred             --CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           88 --GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        88 --~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                        .+|++++|+|+++   ++....|+..+..   .+.|+++|+||+|+.....+. .....++...+++++++||+++.|
T Consensus        83 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~  155 (188)
T 2wjg_A           83 NEKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMG  155 (188)
T ss_dssp             HHCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBS
T ss_pred             ccCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCC
Confidence              5999999999875   4556677777655   457999999999987544443 346678888899999999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYSN  180 (222)
Q Consensus       166 i~~~~~~i~~~~~~~  180 (222)
                      ++++|+++++.+...
T Consensus       156 v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          156 IEELKKAISIAVKDK  170 (188)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999998876543

>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=99.93  E-value=7.5e-26  Score=170.75  Aligned_cols=159  Identities=16%  Similarity=0.175  Sum_probs=108.6

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC----------cchhhhh
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG----------QERFRAV   81 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~   81 (222)
                      +....++|+++|++|||||||+++|.+..+.....++.+.+........+.   .+.+||+||          .+.+...
T Consensus        19 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~   95 (195)
T 1svi_A           19 PEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHH
Confidence            345678999999999999999999998875544444444444444444443   478999999          6667777


Q ss_pred             HHHhhcCC---CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--HHHHH-HHHHcCCeE
Q 040481           82 TSAYYRGA---VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST--EEGKS-LAEAEGLFF  155 (222)
Q Consensus        82 ~~~~~~~~---d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~--~~~~~-~~~~~~~~~  155 (222)
                      +..+++.+   |++++|+|++++.++.... ++..+..   .+.|+++|+||+|+.+...+..  +++.+ +....++++
T Consensus        96 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  171 (195)
T 1svi_A           96 IETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDEL  171 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEE
T ss_pred             HHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCce
Confidence            77777776   9999999999987766542 2222222   4579999999999976444322  22222 222346789


Q ss_pred             EEEccCCCCCHHHHHHHHHHHH
Q 040481          156 METSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       156 ~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      +++||++|.|++++|++|.+.+
T Consensus       172 ~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          172 ILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEEccCCCCHHHHHHHHHHHh
Confidence            9999999999999999998765

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.93  E-value=2.4e-25  Score=162.73  Aligned_cols=150  Identities=19%  Similarity=0.181  Sum_probs=106.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hhhhHHHhhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FRAVTSAYYRG   88 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~   88 (222)
                      ++|+++|++|+|||||+++|.+.... ....++.+.+.....+..++.  .+.+||+||...       +...+..+++.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            68999999999999999999988753 223344444555556666664  577999999876       34556778899


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVK  167 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  167 (222)
                      +|++|+|+|++++.+... ..+...+..   .+.|+++|+||+|+.+..    +++.+++ ..++ +++++||++|.|++
T Consensus        80 ~~~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv~  150 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQAD-YEVAEYLRR---KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGLE  150 (161)
T ss_dssp             CSEEEEEEESSSCCCHHH-HHHHHHHHH---HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSHH
T ss_pred             CCEEEEEEECCCcccHhH-HHHHHHHHh---cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCChH
Confidence            999999999998754322 112222222   357999999999997542    2333445 5676 79999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          168 SAFEIVIREI  177 (222)
Q Consensus       168 ~~~~~i~~~~  177 (222)
                      ++|+++++.+
T Consensus       151 ~l~~~l~~~l  160 (161)
T 2dyk_A          151 ELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            9999988753

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.93  E-value=6.5e-26  Score=168.37  Aligned_cols=152  Identities=23%  Similarity=0.223  Sum_probs=114.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh--------hHHHhh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA--------VTSAYY   86 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~   86 (222)
                      ..+|+++|++|||||||+++|.+.... ....++++.++....+.+++.  .+.+||+||...+..        ....++
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQEI   81 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHHH
Confidence            479999999999999999999987643 223344455666667777764  467999999754311        122468


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      +.+|++|+|||++++.+++ ...|+..+......++|+++|+||+|+.+...       .++...+++++++||++|.|+
T Consensus        82 ~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~gv  153 (172)
T 2gj8_A           82 EQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEGV  153 (172)
T ss_dssp             HTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTTH
T ss_pred             HhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCCH
Confidence            9999999999999988876 35677777766556789999999999854211       112234678999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          167 KSAFEIVIREI  177 (222)
Q Consensus       167 ~~~~~~i~~~~  177 (222)
                      +++|++|.+.+
T Consensus       154 ~~l~~~l~~~~  164 (172)
T 2gj8_A          154 DVLRNHLKQSM  164 (172)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHh
Confidence            99999988754

>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=99.93  E-value=5.3e-25  Score=173.66  Aligned_cols=156  Identities=15%  Similarity=0.139  Sum_probs=119.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh------hHHHhh-
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA------VTSAYY-   86 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~-   86 (222)
                      ...++|+++|++|||||||+++|++..+.....+..+.+.....+...+  ..+.+||+||...+..      +...++ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            4568999999999999999999998776544455555555555555544  5688999999876653      334555 


Q ss_pred             -cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           87 -RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        87 -~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                       ..+|++|+|+|+++.++..   .|...+..   .++|+++|+||+|+.+.+.+.. ....++..++++++++||++|.|
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~---~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg~~vi~~SA~~g~g  153 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSL---YLLLEILE---MEKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEG  153 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHH---HHHHHHHT---TTCCEEEEEECHHHHHHTTCCB-CHHHHHHHHCSCEEECCTTTCTT
T ss_pred             hcCCCEEEEEeCCCchhhHH---HHHHHHHh---cCCCEEEEEECcCCCCccchHH-HHHHHHHHcCCCEEEEEeeCCcC
Confidence             5899999999999876533   35555544   3689999999999975544443 36778888999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIY  178 (222)
Q Consensus       166 i~~~~~~i~~~~~  178 (222)
                      ++++|+.+.+.+.
T Consensus       154 i~el~~~i~~~~~  166 (258)
T 3a1s_A          154 LEELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988654

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.93  E-value=1.6e-26  Score=186.01  Aligned_cols=157  Identities=15%  Similarity=0.214  Sum_probs=118.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCC---CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh---hHHHhhcCCCE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNP---HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA---VTSAYYRGAVG   91 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~   91 (222)
                      ||+++|+.|||||||++++.+...+.   ...+|.+.++..  +  + ..+.+++|||+|+++|..   .+..+|+.+++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~--v--~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH--F--S-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE--E--C-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE--E--c-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999887654332   245666666543  2  2 347899999999999964   46889999999


Q ss_pred             EEEEEECCCh--hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC-------CCCCHHHHHHHHHH----cCCeEEEE
Q 040481           92 ALIVYDITRR--TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI-------RNVSTEEGKSLAEA----EGLFFMET  158 (222)
Q Consensus        92 vi~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~-------~~~~~~~~~~~~~~----~~~~~~~~  158 (222)
                      +|+|||++++  ..+..+..|+..+.... .++|+++++||+|+...       +.+..+++.++++.    .++.|++|
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~~-~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eT  154 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKVN-PSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLT  154 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHHC-TTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECC
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhcC-CCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEe
Confidence            9999999998  22333333444444433 46899999999999753       34666667777775    67899999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHHh
Q 040481          159 SALDSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       159 sa~~~~~i~~~~~~i~~~~~~~~  181 (222)
                      ||++ .+|.++|..+++.++.+.
T Consensus       155 SAkd-~nV~eAFs~iv~~li~~~  176 (331)
T 3r7w_B          155 SIFD-HSIYEAFSRIVQKLIPEL  176 (331)
T ss_dssp             CSSS-SHHHHHHHHHHTTSSTTH
T ss_pred             ccCC-CcHHHHHHHHHHHHHhhH
Confidence            9998 589999999998766543

>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=99.93  E-value=1.1e-24  Score=176.01  Aligned_cols=164  Identities=18%  Similarity=0.100  Sum_probs=125.8

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC-CCccceeEEEEEEEECCeEEEEEEEeCCCcchhh----------
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR----------   79 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~----------   79 (222)
                      ++..+.-.|+++|.+|||||||+|+|++..+.... .+.++........... ....+.+|||||...+.          
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~-~~~~i~lvDTPG~~~~~~~~~l~~~~~   83 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIP-NEAQIIFLDTPGIYEPKKSDVLGHSMV   83 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEET-TTEEEEEEECCCCCCCCTTCHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecC-CCCeEEEEECcCCCccccchhHHHHHH
Confidence            45566779999999999999999999998875432 2333333333333333 14668899999985433          


Q ss_pred             hhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEE
Q 040481           80 AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG--LFFME  157 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~  157 (222)
                      ..+..++..+|++++|+|++++.++.....|+..+..   .+.|+++|+||+|+........+....+...++  .++++
T Consensus        84 ~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~  160 (308)
T 3iev_A           84 EIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVP  160 (308)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEE
T ss_pred             HHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEE
Confidence            5667788999999999999999888887777877766   457999999999997445555666777777765  78999


Q ss_pred             EccCCCCCHHHHHHHHHHHHH
Q 040481          158 TSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      +||++|.|++++|+.+.+.+.
T Consensus       161 vSA~~g~gv~~L~~~l~~~l~  181 (308)
T 3iev_A          161 ISALKGANLDELVKTILKYLP  181 (308)
T ss_dssp             CBTTTTBSHHHHHHHHHHHSC
T ss_pred             EeCCCCCCHHHHHHHHHHhCc
Confidence            999999999999999888664

>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=99.92  E-value=2.6e-25  Score=175.16  Aligned_cols=151  Identities=15%  Similarity=0.131  Sum_probs=118.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh----------hHHHhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA----------VTSAYY   86 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~   86 (222)
                      .+|+++|++|||||||+++|++........++.+.+.....+.+++.  .+.+||+||...+..          ....++
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            48999999999999999999998765555666677777777777765  678999999866543          556667


Q ss_pred             --cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC
Q 040481           87 --RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST  164 (222)
Q Consensus        87 --~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  164 (222)
                        ..+|++|+|+|+++.+.+..+..++   .   ..++|+++|+||+|+.....+.. ....++..++++++++||++|.
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~l---~---~~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~  152 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQL---F---ELGKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNI  152 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHHH---T---TSCSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTB
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHHH---H---HcCCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCC
Confidence              8999999999999976654443332   2   24689999999999865443322 2455778889999999999999


Q ss_pred             CHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIRE  176 (222)
Q Consensus       165 ~i~~~~~~i~~~  176 (222)
                      |++++|+++.+.
T Consensus       153 gi~el~~~i~~~  164 (256)
T 3iby_A          153 GIPALQQSLLHC  164 (256)
T ss_dssp             SHHHHHHHHHTC
T ss_pred             CHHHHHHHHHhh
Confidence            999999988764

>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=99.92  E-value=4.2e-25  Score=175.31  Aligned_cols=153  Identities=20%  Similarity=0.156  Sum_probs=115.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh------hhHHHhhc-
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR------AVTSAYYR-   87 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~-   87 (222)
                      ..++|+++|++|||||||+++|++........+..+.+..  ...+.. ...+.+||+||...+.      .....++. 
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~--~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~   78 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERK--SGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLS   78 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCE--EEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEE--EEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhc
Confidence            3579999999999999999999987654444444443333  333444 5668899999987764      45566665 


Q ss_pred             -CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           88 -GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        88 -~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                       .+|++|+|+|+++.+.+   ..|...+..   .++|+++|+||+|+.....+. .....++..++++++++||++|.|+
T Consensus        79 ~~~d~vi~V~D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi  151 (272)
T 3b1v_A           79 QRADSILNVVDATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGV  151 (272)
T ss_dssp             TCCSEEEEEEEGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSH
T ss_pred             CCCCEEEEEecCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCH
Confidence             69999999999987553   345555544   468999999999986544444 3456788888999999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          167 KSAFEIVIREI  177 (222)
Q Consensus       167 ~~~~~~i~~~~  177 (222)
                      +++|+++.+.+
T Consensus       152 ~el~~~i~~~~  162 (272)
T 3b1v_A          152 DQVVKKAAHTT  162 (272)
T ss_dssp             HHHHHHHHHSC
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.92  E-value=2e-24  Score=162.59  Aligned_cols=158  Identities=15%  Similarity=0.200  Sum_probs=111.9

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC----------cchhhh
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG----------QERFRA   80 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~   80 (222)
                      .+....++|+++|++|||||||+++|++.... ...++.+.+........+.   .+.+||+||          .+.+..
T Consensus        18 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~   93 (195)
T 3pqc_A           18 YPPPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKR   93 (195)
T ss_dssp             CCCCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHH
Confidence            44566789999999999999999999998743 2233333333333333332   367999999          556667


Q ss_pred             hHHHhhcCC---CEEEEEEECCChhhH--HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC--CCCHHHHHHHHHHc-C
Q 040481           81 VTSAYYRGA---VGALIVYDITRRTTF--DSISRWLDELKTHSDTTVARMLVGNKCDLESIR--NVSTEEGKSLAEAE-G  152 (222)
Q Consensus        81 ~~~~~~~~~---d~vi~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~-~  152 (222)
                      .+..+++.+   |++++|+|+.+..+.  ..+..|+...      +.|+++|+||+|+.+..  ....++...++... +
T Consensus        94 ~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  167 (195)
T 3pqc_A           94 LVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGE  167 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCC
T ss_pred             HHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCC
Confidence            777777665   999999999876443  3333444332      57999999999997432  22334455555553 4


Q ss_pred             CeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          153 LFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       153 ~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ++++++||++|.|++++|+++.+.+.
T Consensus       168 ~~~~~~Sa~~~~gv~~l~~~l~~~l~  193 (195)
T 3pqc_A          168 YTIIPTSSVTGEGISELLDLISTLLK  193 (195)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             CceEEEecCCCCCHHHHHHHHHHHhh
Confidence            78999999999999999999988764

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.92  E-value=1.9e-25  Score=193.20  Aligned_cols=165  Identities=21%  Similarity=0.283  Sum_probs=125.0

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEE------EEE--CCeEEEEEEEeCCCcchhhhhHH
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQS------MEI--DGKEVKAQIWDTAGQERFRAVTS   83 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~------~~~--~~~~~~~~i~D~~G~~~~~~~~~   83 (222)
                      .....+||+++|.+|||||||+++|++..+...+.++.+.++....      +.+  ++..+.+.+||+||++.+...+.
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~  116 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ  116 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH
Confidence            4567799999999999999999999999887777788777666442      111  23457789999999999999999


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      .+++.+|++|+|||+++.   +.+..|+..+..... +.|+++|+||+|+.+...+..++...++...+++++++||++|
T Consensus       117 ~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~~-~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g  192 (535)
T 3dpu_A          117 FFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYGG-KSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNG  192 (535)
T ss_dssp             HHHHSSEEEEEEECGGGG---GGHHHHHHHHHHHSS-SCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC---
T ss_pred             HHccCCcEEEEEEeCCCc---hhHHHHHHHHHHhCC-CCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcc
Confidence            999999999999999765   445678888877653 5799999999999887788888888888889999999999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIYSN  180 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~~  180 (222)
                      .|++++|..+.+.+.+.
T Consensus       193 ~gi~eL~~~l~~~~~~~  209 (535)
T 3dpu_A          193 DGVESIAKSLKSAVLHP  209 (535)
T ss_dssp             --CTTHHHHHHHHHTCT
T ss_pred             cCHHHHHHHHHHHHhcc
Confidence            99999999998877654

>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=99.91  E-value=7.5e-24  Score=168.28  Aligned_cols=157  Identities=19%  Similarity=0.146  Sum_probs=120.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh------hHHHhh--
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA------VTSAYY--   86 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--   86 (222)
                      +.++|+++|++|||||||+++|++........++.+.+.....+.+.+..  +.+||+||...+..      ....++  
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~~--~~l~DtpG~~~~~~~~~~~~~~~~~~~~   79 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREKE--FLVVDLPGIYSLTAHSIDELIARNFILD   79 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTEE--EEEEECCCCSCCCSSCHHHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCce--EEEEeCCCccccccCCHHHHHHHHhhhc
Confidence            35799999999999999999999987655556666777777777776644  78999999877654      455666  


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      ..+|++|+|+|+++...   ...|...+....  ..|+++|+||+|+.+....... ...+...++++++++||++|.|+
T Consensus        80 ~~~d~vi~v~D~~~~~~---~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~~~~~~~-~~~l~~~lg~~~~~~Sa~~g~gi  153 (271)
T 3k53_A           80 GNADVIVDIVDSTCLMR---NLFLTLELFEME--VKNIILVLNKFDLLKKKGAKID-IKKMRKELGVPVIPTNAKKGEGV  153 (271)
T ss_dssp             TCCSEEEEEEEGGGHHH---HHHHHHHHHHTT--CCSEEEEEECHHHHHHHTCCCC-HHHHHHHHSSCEEECBGGGTBTH
T ss_pred             cCCcEEEEEecCCcchh---hHHHHHHHHhcC--CCCEEEEEEChhcCcccccHHH-HHHHHHHcCCcEEEEEeCCCCCH
Confidence            68999999999998642   233333333321  2799999999998654333332 66788888999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYS  179 (222)
Q Consensus       167 ~~~~~~i~~~~~~  179 (222)
                      +++|+.+.+.+..
T Consensus       154 ~~l~~~i~~~~~~  166 (271)
T 3k53_A          154 EELKRMIALMAEG  166 (271)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999998886543

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.91  E-value=3.4e-24  Score=165.12  Aligned_cols=163  Identities=18%  Similarity=0.168  Sum_probs=108.7

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcC--CCCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCc----------chh
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEF--NPHSKATIGVEFQTQSMEID-GKEVKAQIWDTAGQ----------ERF   78 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~----------~~~   78 (222)
                      +....++|+++|++|+|||||+++|++...  .....+..+....  ...+. .....+.+|||||.          +.+
T Consensus        25 ~~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~  102 (223)
T 4dhe_A           25 PPTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHIN--YFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHW  102 (223)
T ss_dssp             CCCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEE--EEEESCTTSCSEEEEECCCCCSSCCCSTHHHHH
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceE--EEEecCCCCCcEEEEcCCCCCcccCChhhHHHH
Confidence            344568999999999999999999999863  2222232233332  33333 33456889999994          334


Q ss_pred             hhhHHHhhcC---CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHH-HHHHHH--
Q 040481           79 RAVTSAYYRG---AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEG-KSLAEA--  150 (222)
Q Consensus        79 ~~~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~-~~~~~~--  150 (222)
                      ...+..++..   +|++|+|+|+.++.+. ....|+..+..   .++|+++|+||+|+.......  .+.. ..+...  
T Consensus       103 ~~~~~~~~~~~~~~d~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~  178 (223)
T 4dhe_A          103 EQLLSSYLQTRPQLCGMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRD  178 (223)
T ss_dssp             HHHHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcCcCEEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhh
Confidence            5555566655   7889999999886442 22445555544   457999999999997533321  1112 222222  


Q ss_pred             ----cCCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          151 ----EGLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       151 ----~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                          .+++++++||++|.|++++|++|.+.+...
T Consensus       179 ~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          179 AGYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             HTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             cccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence                567899999999999999999998876543

>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=99.91  E-value=3.1e-24  Score=170.76  Aligned_cols=154  Identities=16%  Similarity=0.148  Sum_probs=116.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh----------hhHHHh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR----------AVTSAY   85 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~----------~~~~~~   85 (222)
                      .++|+++|++|+|||||+|+|++........++.+.+.....+...+.  .+.+||+||...+.          .....+
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~e~i~~~~   80 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDH--QVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSC--EEEEEECCCCSCSCC----CCHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCC--ceEEEECcCCCccccccccCCHHHHHHHHH
Confidence            489999999999999999999998765555566666666666666554  46799999977654          223333


Q ss_pred             h--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           86 Y--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        86 ~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      +  ..+|++|+|+|+++.+.+..+..++..+      ++|+++|+||+|+.+...+.. ....++..++++++++||++|
T Consensus        81 ~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~------~~p~ivv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~i~~SA~~g  153 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNLERNLYLTLQLLEL------GIPCIVALNMLDIAEKQNIRI-EIDALSARLGCPVIPLVSTRG  153 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGHHHHHHHHHHHHHH------TCCEEEEEECHHHHHHTTEEE-CHHHHHHHHTSCEEECCCGGG
T ss_pred             HhhcCCCEEEEEecCCChHHHHHHHHHHHhc------CCCEEEEEECccchhhhhHHH-HHHHHHHhcCCCEEEEEcCCC
Confidence            3  7999999999999876654444444332      579999999999865433322 245677888999999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIY  178 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~  178 (222)
                      .|++++|+.+.+.+.
T Consensus       154 ~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          154 RGIEALKLAIDRYKA  168 (274)
T ss_dssp             HHHHHHHHHHHTCCC
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999998876543

>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=99.90  E-value=1.4e-24  Score=166.72  Aligned_cols=144  Identities=18%  Similarity=0.283  Sum_probs=106.4

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC---CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcC-
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP---HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG-   88 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~-   88 (222)
                      ....++|+++|++|+|||||+++|.+..+..   .+.++.+.++         ..+.+.+||+||++.+...+..++.. 
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~   79 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTR   79 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHhc
Confidence            4456899999999999999999999987644   2333332222         33457899999999998888888877 


Q ss_pred             ---CCEEEEEEECC-ChhhHHHHHHHHHHHHhc----CCCCCcEEEEEeCCCCCcCCCCC------HHHHHHHHHHcCCe
Q 040481           89 ---AVGALIVYDIT-RRTTFDSISRWLDELKTH----SDTTVARMLVGNKCDLESIRNVS------TEEGKSLAEAEGLF  154 (222)
Q Consensus        89 ---~d~vi~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~p~iiv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~  154 (222)
                         +|++|+|||++ ++.+|..+..|+..+...    ...++|+++|+||+|+.....+.      .++...++...++.
T Consensus        80 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~  159 (218)
T 1nrj_B           80 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKS  159 (218)
T ss_dssp             GGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhcc
Confidence               89999999999 888999998888777654    34678999999999998655433      34556677777888


Q ss_pred             EEEEccCCCCC
Q 040481          155 FMETSALDSTN  165 (222)
Q Consensus       155 ~~~~sa~~~~~  165 (222)
                      ++++||++|.+
T Consensus       160 ~~~~Sa~~~~~  170 (218)
T 1nrj_B          160 LNEVERKINEE  170 (218)
T ss_dssp             HHC--------
T ss_pred             ccccccccccc
Confidence            99999998764

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.90  E-value=1.4e-22  Score=166.94  Aligned_cols=163  Identities=20%  Similarity=0.184  Sum_probs=121.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh---------hhHHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR---------AVTSA   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~   84 (222)
                      ...++|+++|++|||||||+++|.+........+..+.......+...+  ..+.+|||||.....         .....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  242 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGY--FRYQIIDTPGLLDRPISERNEIEKQAILA  242 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEETT--EEEEEEECTTTSSSCSTTSCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEecC--ceEEEEeCCCccccchhhhhHHHHHHHHH
Confidence            3457999999999999999999998764322223333444444444443  567899999974321         12234


Q ss_pred             hhcCCCEEEEEEECCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCC
Q 040481           85 YYRGAVGALIVYDITRRT--TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALD  162 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  162 (222)
                      +...+|++++|+|+++..  +++....|+..+..... +.|+++|+||+|+.+...+  ++...++...+++++++||++
T Consensus       243 ~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSA~~  319 (357)
T 2e87_A          243 LRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALK  319 (357)
T ss_dssp             GGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHHH--HHHHHHHHHTTCCCEECBTTT
T ss_pred             HHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHHH--HHHHHHHHhcCCCeEEEeCCC
Confidence            556799999999999877  77888888888876543 6899999999999754332  445566777889999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHh
Q 040481          163 STNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~~~~~  181 (222)
                      |+|++++++++.+.+....
T Consensus       320 g~gi~~l~~~i~~~l~~~~  338 (357)
T 2e87_A          320 GTGIDLVKEEIIKTLRPLA  338 (357)
T ss_dssp             TBTHHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHH
Confidence            9999999999999876543

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.89  E-value=9.1e-23  Score=173.20  Aligned_cols=157  Identities=18%  Similarity=0.137  Sum_probs=99.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhH--------HHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVT--------SAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~   85 (222)
                      ..++|+++|++|+|||||+|+|++.... ....++++.+.....+.+++  +.+.+|||||...+...+        ..+
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~  309 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMK  309 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhh
Confidence            3579999999999999999999987542 33345555566666666766  467899999987655332        346


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      +..+|++|+|+|++++.+++.+..+...+....  +.|+++|+||+|+.......   ...+......+++++||++|.|
T Consensus       310 ~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~~---~~~l~~~~~~~~i~vSAktg~G  384 (476)
T 3gee_A          310 MAEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADAL---IRAIADGTGTEVIGISALNGDG  384 (476)
T ss_dssp             CSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHHH---HHHHHHHHTSCEEECBTTTTBS
T ss_pred             cccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccchh---HHHHHhcCCCceEEEEECCCCC
Confidence            789999999999999988754333333333322  58999999999997644331   2334443347899999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIY  178 (222)
Q Consensus       166 i~~~~~~i~~~~~  178 (222)
                      ++++|++|.+.+.
T Consensus       385 I~eL~~~i~~~~~  397 (476)
T 3gee_A          385 IDTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988775

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.89  E-value=7e-23  Score=172.93  Aligned_cols=160  Identities=19%  Similarity=0.178  Sum_probs=114.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCc----------chhhhhH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ----------ERFRAVT   82 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~   82 (222)
                      +..++|+++|.+|||||||+++|++.... ....++++.+.....+..++..  +.+|||||+          +.+....
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQE--FVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTEE--EEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCeE--EEEEECCCcCcCccccchHHHHHHHH
Confidence            34689999999999999999999987653 2333444555555556666654  779999997          4444443


Q ss_pred             H-HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH-HHHH----HcCCeEE
Q 040481           83 S-AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK-SLAE----AEGLFFM  156 (222)
Q Consensus        83 ~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~-~~~~----~~~~~~~  156 (222)
                      . .+++.+|++|+|+|++++.+++.. .|+..+..   .+.|+++|+||+|+.+.+....++.. ++..    ..+++++
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~  326 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  326 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEE
Confidence            3 478899999999999999887765 56666654   45899999999999865554433332 2222    2368999


Q ss_pred             EEccCCCCCHHHHHHHHHHHHHH
Q 040481          157 ETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       157 ~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      ++||++|.|++++|+.+.+.+..
T Consensus       327 ~~SA~tg~~v~~l~~~i~~~~~~  349 (436)
T 2hjg_A          327 FMSALTKKRIHTLMPAIIKASEN  349 (436)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             EEecccCCCHHHHHHHHHHHHHH
Confidence            99999999999999988876554

>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=99.88  E-value=1.5e-22  Score=171.90  Aligned_cols=161  Identities=19%  Similarity=0.161  Sum_probs=117.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcC-CCCCCCccceeEEEEEEEECCeEEEEEEEeCCC----------cchhhhhH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG----------QERFRAVT   82 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~   82 (222)
                      ...++|+++|.+++|||||+++|++... .....++++.+.....+..++.  .+.+|||||          .+.+....
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  270 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  270 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHH
Confidence            4568999999999999999999997653 2233344444444445555664  577999999          56666554


Q ss_pred             H-HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-----CCeEE
Q 040481           83 S-AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-----GLFFM  156 (222)
Q Consensus        83 ~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~  156 (222)
                      . .+++.+|++|+|+|++++.+ +....|...+..   .+.|+++|+||+|+.+.+....++..+.+...     +++++
T Consensus       271 ~~~~~~~ad~~llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  346 (456)
T 4dcu_A          271 ALKAIDRSEVVAVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  346 (456)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhhCCEEEEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEE
Confidence            4 47899999999999998654 222445555544   45899999999999876666666666666654     58999


Q ss_pred             EEccCCCCCHHHHHHHHHHHHHHH
Q 040481          157 ETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       157 ~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      ++||++|.|++++|..+.+.+...
T Consensus       347 ~~SA~~g~gv~~l~~~i~~~~~~~  370 (456)
T 4dcu_A          347 FMSALTKKRIHTLMPAIIKASENH  370 (456)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             EEcCCCCcCHHHHHHHHHHHHHHh
Confidence            999999999999999988865544

>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=99.88  E-value=2e-22  Score=162.15  Aligned_cols=154  Identities=19%  Similarity=0.162  Sum_probs=108.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcch--------hhhhHHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--------FRAVTSAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~   85 (222)
                      +..+|+++|.+|||||||+|+|++..+... ..+.++.......+...  ...+.+|||||...        +......+
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~--~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~   83 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEG--RRQIVFVDTPGLHKPMDALGEFMDQEVYEA   83 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEET--TEEEEEEECCCCCCCCSHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeC--CcEEEEecCccccchhhHHHHHHHHHHHHH
Confidence            456899999999999999999999887532 23333333222222223  46788999999765        44556678


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHH-HHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH--cCCeEEEEccCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWL-DELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA--EGLFFMETSALD  162 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~sa~~  162 (222)
                      ++.+|++++|||++++.+..  ..|+ ..+.... .+.|+++|+||+|+......    ..+.+..  ...+++++||++
T Consensus        84 l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~-~~~p~ilV~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~iSA~~  156 (301)
T 1wf3_A           84 LADVNAVVWVVDLRHPPTPE--DELVARALKPLV-GKVPILLVGNKLDAAKYPEE----AMKAYHELLPEAEPRMLSALD  156 (301)
T ss_dssp             TSSCSEEEEEEETTSCCCHH--HHHHHHHHGGGT-TTSCEEEEEECGGGCSSHHH----HHHHHHHTSTTSEEEECCTTC
T ss_pred             HhcCCEEEEEEECCCCCChH--HHHHHHHHHhhc-CCCCEEEEEECcccCCchHH----HHHHHHHhcCcCcEEEEeCCC
Confidence            89999999999999875533  3444 4454432 36899999999999753220    2222222  235799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIREI  177 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~  177 (222)
                      |.|++++|+.+...+
T Consensus       157 g~gv~~l~~~l~~~l  171 (301)
T 1wf3_A          157 ERQVAELKADLLALM  171 (301)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHhc
Confidence            999999999887654

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.88  E-value=3.1e-23  Score=173.44  Aligned_cols=160  Identities=16%  Similarity=0.138  Sum_probs=115.4

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh-------HH
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV-------TS   83 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~   83 (222)
                      +....++|+++|+.++|||||+++|++..+. ....+.++.+.....+.+.+.. .+.+|||||+..+...       +.
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l~~~~~~~~~  108 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGELGRLRVEKAR  108 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTE-EEEEEECSSTTCCCTTCCCCHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccchhHHHHHHHH
Confidence            4556789999999999999999999988763 2334444556666666665542 6789999998766433       45


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCC
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDS  163 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  163 (222)
                      .++..+|++|+|+|+...   .....|+..+...   ++|+++|+||+|+......  +...+++..++++++++||++|
T Consensus       109 ~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAktg  180 (423)
T 3qq5_A          109 RVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSALQK  180 (423)
T ss_dssp             HHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSCCT
T ss_pred             HHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECCCC
Confidence            678999999999999333   3335666666654   5799999999999865443  5566677777899999999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIYSN  180 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~~  180 (222)
                      .|++++|+.|.+.+.+.
T Consensus       181 ~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          181 KGFDDIGKTISEILPGD  197 (423)
T ss_dssp             TSTTTHHHHHHHHSCCC
T ss_pred             CCHHHHHHHHHHhhhhh
Confidence            99999999998877443

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.87  E-value=1.2e-22  Score=165.74  Aligned_cols=157  Identities=18%  Similarity=0.151  Sum_probs=116.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----hhhhHHHh---hcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----FRAVTSAY---YRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~---~~~~d   90 (222)
                      +|+++|.++||||||+++|++........+.++.......+.+++ ...+.+||+||...    +..+...+   +..+|
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~-~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d  238 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR  238 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHhcc
Confidence            588999999999999999988654222222223333333444443 23578999999543    22333344   45599


Q ss_pred             EEEEEEECCC---hhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEEccCCC
Q 040481           91 GALIVYDITR---RTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG--LFFMETSALDS  163 (222)
Q Consensus        91 ~vi~v~d~~~---~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~  163 (222)
                      ++|+|||+++   +.+++.+..|+.++.....  ..+|+++|+||+|+....    +...++...+.  ++++++||+++
T Consensus       239 ~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~tg  314 (342)
T 1lnz_A          239 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTR  314 (342)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCS
T ss_pred             EEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCCC
Confidence            9999999998   7889999999999988753  578999999999986422    34556666665  68999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIYS  179 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~~  179 (222)
                      .|+++++.+|.+.+.+
T Consensus       315 ~gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          315 EGLRELLFEVANQLEN  330 (342)
T ss_dssp             STTHHHHHHHHHHHTS
T ss_pred             cCHHHHHHHHHHHHhh
Confidence            9999999999887654

>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=99.87  E-value=8.3e-22  Score=153.63  Aligned_cols=166  Identities=14%  Similarity=0.109  Sum_probs=106.1

Q ss_pred             CCCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCC--ccceeEEEEEEEECCeEEEEEEEeCCCcc-----------
Q 040481           10 GGGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA--TIGVEFQTQSMEIDGKEVKAQIWDTAGQE-----------   76 (222)
Q Consensus        10 ~~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----------   76 (222)
                      ..+....++|+++|++|||||||+++|++........+  +.+.......+.+++.  .+.+|||||..           
T Consensus        23 ~~~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~liDTpG~~~~~~~~~~~~~  100 (239)
T 3lxx_A           23 QEPRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKET--ELVVVDTPGIFDTEVPNAETSK  100 (239)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTE--EEEEEECCSCC-----CHHHHH
T ss_pred             CCCCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCc--eEEEEECCCccCCCCCHHHHHH
Confidence            44556779999999999999999999999887555444  3444555555556654  56799999932           


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCC------HHHHHHHH
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS--DTTVARMLVGNKCDLESIRNVS------TEEGKSLA  148 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~iiv~nK~Dl~~~~~~~------~~~~~~~~  148 (222)
                      .+...+...++.+|++|+|+|++.....  ...|+..+....  ....|+++|+||+|+.+...+.      .+....+.
T Consensus       101 ~~~~~~~~~~~~~~~~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~  178 (239)
T 3lxx_A          101 EIIRCILLTSPGPHALLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLM  178 (239)
T ss_dssp             HHHHHHHHTTTCCSEEEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------CHHHHHHH
T ss_pred             HHHHHHHhcCCCCcEEEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHHHhchHHHHHHH
Confidence            3444455566788999999999754331  122333332111  1235899999999986543333      24567788


Q ss_pred             HHcCCeEEEEccCCC-----CCHHHHHHHHHHHHHH
Q 040481          149 EAEGLFFMETSALDS-----TNVKSAFEIVIREIYS  179 (222)
Q Consensus       149 ~~~~~~~~~~sa~~~-----~~i~~~~~~i~~~~~~  179 (222)
                      ...+..|+.++...+     .++.++|..+...+.+
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          179 DIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             HHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            888888888877644     6788888877665543

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.87  E-value=1.5e-21  Score=165.96  Aligned_cols=153  Identities=24%  Similarity=0.251  Sum_probs=115.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc-hhh--------hhHHHh
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE-RFR--------AVTSAY   85 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~--------~~~~~~   85 (222)
                      .++|+++|.+|||||||+|+|++.... ....+.++.+.....+.+++  ..+.+|||||.. .+.        .....+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            389999999999999999999987643 33445556666666677766  457899999987 543        224567


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      +..+|++|+|||++++.+++... ++..+     ...|+++|+||+|+.+.  +..+++..++ ..+++++++||++|.|
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~~~~~~-~~~~~~i~iSAktg~G  391 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEEIKNKL-GTDRHMVKISALKGEG  391 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHH-TCSTTEEEEEGGGTCC
T ss_pred             hhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHh-cCCCcEEEEECCCCCC
Confidence            89999999999999988776543 33333     25799999999999753  3444444443 2447899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYS  179 (222)
Q Consensus       166 i~~~~~~i~~~~~~  179 (222)
                      +++++++|.+.+..
T Consensus       392 i~eL~~~l~~~~~~  405 (482)
T 1xzp_A          392 LEKLEESIYRETQE  405 (482)
T ss_dssp             HHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999987664

>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=99.87  E-value=3.2e-21  Score=164.40  Aligned_cols=159  Identities=16%  Similarity=0.127  Sum_probs=111.6

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCc-------CCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHH
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNE-------FNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTS   83 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   83 (222)
                      ......++|+++|+.++|||||+++|++..       ...+..+.++.+.....+.+++  ..+.+||+||++.+...+.
T Consensus        14 ~~~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~   91 (482)
T 1wb1_A           14 HMDFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVV   91 (482)
T ss_dssp             CCCCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHH
T ss_pred             hhcCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHH
Confidence            344567999999999999999999999876       2233333344444444444554  5688999999999988888


Q ss_pred             HhhcCCCEEEEEEECCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHc----CCe
Q 040481           84 AYYRGAVGALIVYDITR---RTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTEEGKSLAEAE----GLF  154 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~----~~~  154 (222)
                      ..+..+|++|+|+|+++   +++++.+    ..+..   .++|+++++||+|+.+...  ...+++.+++...    +++
T Consensus        92 ~~~~~aD~~ilVvda~~g~~~qt~e~l----~~~~~---~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~  164 (482)
T 1wb1_A           92 SAADIIDLALIVVDAKEGPKTQTGEHM----LILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSS  164 (482)
T ss_dssp             HHTTSCCEEEEEEETTTCSCHHHHHHH----HHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCC
T ss_pred             HHHhhCCEEEEEEecCCCccHHHHHHH----HHHHH---cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccce
Confidence            99999999999999988   4443332    23332   3578899999999975221  1223444555544    578


Q ss_pred             EEEEccCCCCCHHHHHHHHHHHHH
Q 040481          155 FMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       155 ~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ++++||++|.|++++++.|.+.+.
T Consensus       165 ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          165 IIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHHhhc
Confidence            999999999999999998888665

>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=99.86  E-value=1.1e-20  Score=158.08  Aligned_cols=162  Identities=17%  Similarity=0.096  Sum_probs=113.3

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEE----------------EEEE---CCeEEEEEEEeCC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQ----------------SMEI---DGKEVKAQIWDTA   73 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~----------------~~~~---~~~~~~~~i~D~~   73 (222)
                      ..+.++|+++|++++|||||+++|++.......... .......                ....   ......+.+||||
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtP   83 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYA-ETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAP   83 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEE-EEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcccccccCcc-ccceeeccccccccceecccccccccccccccccceEEEEECC
Confidence            456689999999999999999999875432211000 0000000                0000   1123678999999


Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHH-
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEGKSLAEA-  150 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~-  150 (222)
                      |++.+.......+..+|++|+|+|++++.++....+|+..+.....  .|+++|+||+|+.+.....  .+++.++... 
T Consensus        84 Gh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~--~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~  161 (403)
T 3sjy_A           84 GHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGV--KNLIIVQNKVDVVSKEEALSQYRQIKQFTKGT  161 (403)
T ss_dssp             CCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTC--CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTS
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCC--CCEEEEEECccccchHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999998767777777766655432  4889999999997533211  1122222222 


Q ss_pred             --cCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          151 --EGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       151 --~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                        .+++++++||++|.|++++++.|.+.+
T Consensus       162 ~~~~~~ii~vSA~~g~gi~~L~~~l~~~l  190 (403)
T 3sjy_A          162 WAENVPIIPVSALHKINIDSLIEGIEEYI  190 (403)
T ss_dssp             TTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             CCCCCEEEEEECCCCcChHHHHHHHHHhC
Confidence              167899999999999999999887754

>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=99.86  E-value=7.2e-21  Score=159.34  Aligned_cols=160  Identities=17%  Similarity=0.150  Sum_probs=103.8

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCc---CCCCCCC--ccceeEEEEEEEE-------------C--C----eEEEEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNE---FNPHSKA--TIGVEFQTQSMEI-------------D--G----KEVKAQ   68 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~---~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~~~   68 (222)
                      ....++|+++|+.++|||||+++|++..   +..+..+  |....+....+..             +  +    ....+.
T Consensus         5 r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   84 (408)
T 1s0u_A            5 SQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVS   84 (408)
T ss_dssp             CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEE
T ss_pred             cCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEE
Confidence            3456899999999999999999998643   2233334  3333333322211             1  1    136789


Q ss_pred             EEeCCCcchhhhhHHHhhcCCCEEEEEEECCCh----hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHH
Q 040481           69 IWDTAGQERFRAVTSAYYRGAVGALIVYDITRR----TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTE  142 (222)
Q Consensus        69 i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~  142 (222)
                      +||+||++.|.......+..+|++|+|+|++++    ++++.+.    .+....  ..|+++++||+|+.+...  ...+
T Consensus        85 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~l~--~~~iivv~NK~Dl~~~~~~~~~~~  158 (408)
T 1s0u_A           85 FVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEILG--IDKIIIVQNKIDLVDEKQAEENYE  158 (408)
T ss_dssp             EEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHHTT--CCCEEEEEECTTSSCTTTTTTHHH
T ss_pred             EEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHHcC--CCeEEEEEEccCCCCHHHHHHHHH
Confidence            999999999988777788889999999999964    4444333    222221  247899999999976443  2334


Q ss_pred             HHHHHHHH---cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          143 EGKSLAEA---EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       143 ~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ++.+++..   .+++++++||++|.|++++++.|.+.+.
T Consensus       159 ~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          159 QIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             HHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSC
T ss_pred             HHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            55666554   3678999999999999999998876543

>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=99.86  E-value=3.2e-21  Score=162.91  Aligned_cols=151  Identities=25%  Similarity=0.309  Sum_probs=104.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch---------hhhhHHHhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER---------FRAVTSAYY   86 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~   86 (222)
                      .+|+++|.++||||||+|+|++.... ....+.++.+.....+.+++..  +.+|||||.+.         +...+..++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKT--FKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEE--EEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCeE--EEEEECCCccccccchHHHHHHHHHHHHH
Confidence            48999999999999999999987753 2344555666666677777654  67999999653         234567789


Q ss_pred             cCCCEEEEEEECCChhhHHH--HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH-HHHHHHcCC-eEEEEccCC
Q 040481           87 RGAVGALIVYDITRRTTFDS--ISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEG-KSLAEAEGL-FFMETSALD  162 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~-~~~~~~~~~-~~~~~sa~~  162 (222)
                      +.+|++|+|+|+.++.+...  +..|+..      .++|+++|+||+|+...  . .... .+++ .++. +++++||++
T Consensus        80 ~~ad~il~V~D~~~~~~~~d~~i~~~l~~------~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~  149 (439)
T 1mky_A           80 READLVLFVVDGKRGITKEDESLADFLRK------STVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEH  149 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHHH------HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTT
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccC
Confidence            99999999999988765432  2333332      24799999999998532  1 1222 3343 4565 689999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIREIYS  179 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~~~  179 (222)
                      |.|+.++|+.+.+.+.+
T Consensus       150 g~gv~~L~~~i~~~l~~  166 (439)
T 1mky_A          150 NINLDTMLETIIKKLEE  166 (439)
T ss_dssp             TBSHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhccc
Confidence            99999999999887764

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.86  E-value=8.1e-21  Score=164.94  Aligned_cols=158  Identities=22%  Similarity=0.295  Sum_probs=111.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCc--CCC-----CC------CCccceeEEEEE--EEE---CCeEEEEEEEeCCCcc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNE--FNP-----HS------KATIGVEFQTQS--MEI---DGKEVKAQIWDTAGQE   76 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~--~~~-----~~------~~~~~~~~~~~~--~~~---~~~~~~~~i~D~~G~~   76 (222)
                      +..+|+|+|+.++|||||+++|+...  +..     ..      ....+.++....  +.+   ++..+.+++|||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            35799999999999999999998632  110     00      011223332222  222   4557889999999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe--
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLF--  154 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~--  154 (222)
                      .|...+...++.+|++|+|+|++++.++.....|+....    .++|+++|+||+|+...+  ..+...++...++..  
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~  156 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDAT  156 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCT
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcc
Confidence            999989999999999999999999887777777766553    357999999999997532  233345566666664  


Q ss_pred             -EEEEccCCCCCHHHHHHHHHHHHH
Q 040481          155 -FMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       155 -~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                       ++++||++|.|++++|+.+++.+.
T Consensus       157 ~vi~vSAktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          157 DAVRCSAKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             TCEEECTTTCTTHHHHHHHHHHHSC
T ss_pred             eEEEeecccCCCchhHHHHHhhcCC
Confidence             899999999999999998887654

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.85  E-value=5.4e-21  Score=156.59  Aligned_cols=125  Identities=18%  Similarity=0.253  Sum_probs=102.4

Q ss_pred             EEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCC----------hhhHHHHHHHHHHHHhcCC-CCC
Q 040481           54 QTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITR----------RTTFDSISRWLDELKTHSD-TTV  122 (222)
Q Consensus        54 ~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~i~~~~~-~~~  122 (222)
                      ....+.++  .+.+++||++|++.+...|..+++.++++|||||+++          ..+|.....|+..+..... .++
T Consensus       184 ~~~~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~  261 (353)
T 1cip_A          184 VETHFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDT  261 (353)
T ss_dssp             EEEEEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTS
T ss_pred             EEEEEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCC
Confidence            33444444  4678899999999999999999999999999999999          4568888888888876532 568


Q ss_pred             cEEEEEeCCCCCcCC---------------CCCHHHHHHHHH-----------HcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          123 ARMLVGNKCDLESIR---------------NVSTEEGKSLAE-----------AEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       123 p~iiv~nK~Dl~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++|++||.|+.+..               .+..+++..++.           ..++.+++|||+++.||.++|.++.+.
T Consensus       262 piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~  341 (353)
T 1cip_A          262 SIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDV  341 (353)
T ss_dssp             EEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHH
T ss_pred             cEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHH
Confidence            999999999985322               356778888876           356789999999999999999999998


Q ss_pred             HHHH
Q 040481          177 IYSN  180 (222)
Q Consensus       177 ~~~~  180 (222)
                      ++..
T Consensus       342 i~~~  345 (353)
T 1cip_A          342 IIKN  345 (353)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8754

>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=99.85  E-value=1.4e-20  Score=163.30  Aligned_cols=160  Identities=22%  Similarity=0.283  Sum_probs=114.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCc--CCC-----CCC------CccceeEE--EEEEEE---CCeEEEEEEEeCCCc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNE--FNP-----HSK------ATIGVEFQ--TQSMEI---DGKEVKAQIWDTAGQ   75 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~--~~~-----~~~------~~~~~~~~--~~~~~~---~~~~~~~~i~D~~G~   75 (222)
                      ....+|+++|+.++|||||+++|+...  +..     ...      ...+.++.  ...+.+   ++..+.+++|||||+
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh   83 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGH   83 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCc
Confidence            456799999999999999999997632  110     000      00111111  112222   455688999999999


Q ss_pred             chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC--
Q 040481           76 ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL--  153 (222)
Q Consensus        76 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~--  153 (222)
                      ..|...+...++.+|++|+|+|++++.+......|+....    .++|+++++||+|+...+  ..+...++...+++  
T Consensus        84 ~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~  157 (600)
T 2ywe_A           84 VDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDP  157 (600)
T ss_dssp             GGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCG
T ss_pred             HhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCCCc
Confidence            9998888889999999999999999988877777766553    457999999999997532  22334556666666  


Q ss_pred             -eEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          154 -FFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       154 -~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                       .++++||++|.|++++|+.+++.+..
T Consensus       158 ~~vi~vSAktg~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          158 EEAILASAKEGIGIEEILEAIVNRIPP  184 (600)
T ss_dssp             GGCEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             ccEEEEEeecCCCchHHHHHHHHhccc
Confidence             38999999999999999998876643

>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=99.85  E-value=2.4e-20  Score=153.54  Aligned_cols=160  Identities=16%  Similarity=0.101  Sum_probs=109.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc---------hhhhhHHHhhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE---------RFRAVTSAYYRG   88 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~   88 (222)
                      .|+++|++|+|||||+++|.+........+..+.+.....+.+++  ..+.+|||+|..         .+... ...+..
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~t-l~~~~~  257 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVT-LSEAKY  257 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHH-HHGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHH-HHHHHh
Confidence            499999999999999999998876433344445555666777777  456799999962         22223 335788


Q ss_pred             CCEEEEEEECCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC-CHHHHHHHHHHc---CCeEEEEccCC
Q 040481           89 AVGALIVYDITRRT--TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV-STEEGKSLAEAE---GLFFMETSALD  162 (222)
Q Consensus        89 ~d~vi~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~-~~~~~~~~~~~~---~~~~~~~sa~~  162 (222)
                      +|++++|+|++++.  ....+..|...+........|+++|+||+|+.+.... ..+.+..++...   +.+++++||++
T Consensus       258 aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~  337 (364)
T 2qtf_A          258 SDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALK  337 (364)
T ss_dssp             SSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTT
T ss_pred             CCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCC
Confidence            99999999999876  5566666666666554456899999999998643210 011222333444   34689999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 040481          163 STNVKSAFEIVIREIYSN  180 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~~~~  180 (222)
                      +.|++++++.|.+.+...
T Consensus       338 g~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          338 RTNLELLRDKIYQLATQL  355 (364)
T ss_dssp             TBSHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHhccc
Confidence            999999999888866543

>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=99.85  E-value=9.3e-21  Score=158.79  Aligned_cols=161  Identities=18%  Similarity=0.173  Sum_probs=110.4

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcC---CCCCCC--ccceeEEEEEEEE-------------C--C----eEEEE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEF---NPHSKA--TIGVEFQTQSMEI-------------D--G----KEVKA   67 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~---~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~~   67 (222)
                      .....++|+++|+.++|||||+++|++...   ..+..+  |....+....+..             +  +    ....+
T Consensus         6 ~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i   85 (410)
T 1kk1_A            6 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRV   85 (410)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEE
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEE
Confidence            346679999999999999999999986432   233334  2222333222211             0  1    13678


Q ss_pred             EEEeCCCcchhhhhHHHhhcCCCEEEEEEECCCh----hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCH
Q 040481           68 QIWDTAGQERFRAVTSAYYRGAVGALIVYDITRR----TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VST  141 (222)
Q Consensus        68 ~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~  141 (222)
                      .+||+||++.|.......+..+|++|+|+|++++    ++.+.+..    +....  ..|+++++||+|+.+...  ...
T Consensus        86 ~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~~~--~~~iivviNK~Dl~~~~~~~~~~  159 (410)
T 1kk1_A           86 SFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMA----LQIIG--QKNIIIAQNKIELVDKEKALENY  159 (410)
T ss_dssp             EEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHH----HHHHT--CCCEEEEEECGGGSCHHHHHHHH
T ss_pred             EEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHH----HHHcC--CCcEEEEEECccCCCHHHHHHHH
Confidence            9999999999888777788889999999999964    44443332    22221  247899999999975332  122


Q ss_pred             HHHHHHHHH---cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          142 EEGKSLAEA---EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       142 ~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      +++.++...   .+++++++||++|.|++++++.|.+.+.
T Consensus       160 ~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          160 RQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            334444443   3678999999999999999998876543

>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=99.85  E-value=9.1e-21  Score=149.50  Aligned_cols=165  Identities=15%  Similarity=0.136  Sum_probs=107.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcC-CCCCCCc-cceeEEEEEEEECCeEEEEEEEeCCCcchhh----------
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEF-NPHSKAT-IGVEFQTQSMEIDGKEVKAQIWDTAGQERFR----------   79 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~----------   79 (222)
                      +....++|+|+|++|||||||+++|++... .....++ ++.+.....+..++  ..+.+|||||...+.          
T Consensus        18 ~~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i   95 (260)
T 2xtp_A           18 ASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEV   95 (260)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHH
Confidence            455679999999999999999999998774 3333333 34444545555555  457899999976542          


Q ss_pred             -hhHHHhhcCCCEEEEEEECCChhhH-HHHHHHHHHHHhcCCCCCcEEEEEe-CCCCCcCCCCCH-------HHHHHHHH
Q 040481           80 -AVTSAYYRGAVGALIVYDITRRTTF-DSISRWLDELKTHSDTTVARMLVGN-KCDLESIRNVST-------EEGKSLAE  149 (222)
Q Consensus        80 -~~~~~~~~~~d~vi~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~p~iiv~n-K~Dl~~~~~~~~-------~~~~~~~~  149 (222)
                       ......++.+|++|+|+|++..... ..+..|+..+.... ...|+++|+| |+|+... .+..       +.+..++.
T Consensus        96 ~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~-~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~  173 (260)
T 2xtp_A           96 QRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGED-AMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVA  173 (260)
T ss_dssp             HHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGG-GGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCch-hhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHH
Confidence             1223467899999999999862221 22233444332211 1346677766 9999742 2211       22444566


Q ss_pred             HcCCe---E--EEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          150 AEGLF---F--METSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       150 ~~~~~---~--~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      ..+..   +  +++||+++.|++++|.++.+.+...
T Consensus       174 ~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          174 ACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             HTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            55543   2  7899999999999999999877653

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.85  E-value=1.5e-20  Score=158.67  Aligned_cols=156  Identities=18%  Similarity=0.172  Sum_probs=105.5

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCC-------------------------------CCCCCccceeEEEEEEE
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFN-------------------------------PHSKATIGVEFQTQSME   59 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~   59 (222)
                      .+....++|+++|++++|||||+++|+.....                               .+..+  +++.......
T Consensus        12 ~~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~--GiTid~~~~~   89 (439)
T 3j2k_7           12 APKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDK--GKTVEVGRAY   89 (439)
T ss_pred             CCCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhc--CceEEEeEEE
Confidence            34566799999999999999999999654211                               11112  3334444444


Q ss_pred             ECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---HH---HHHHHHHHHHhcCCCCCc-EEEEEeCCC
Q 040481           60 IDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---FD---SISRWLDELKTHSDTTVA-RMLVGNKCD  132 (222)
Q Consensus        60 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~p-~iiv~nK~D  132 (222)
                      +......+.+|||||++.|.......+..+|++|+|+|++++..   |+   ...+.+..+.   ..++| +++++||+|
T Consensus        90 ~~~~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~---~~~v~~iIvviNK~D  166 (439)
T 3j2k_7           90 FETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAK---TAGVKHLIVLINKMD  166 (439)
T ss_pred             EecCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHH---HcCCCeEEEEeecCC
Confidence            44445678999999999999988899999999999999998642   11   1122222222   23466 899999999


Q ss_pred             CCcCC--C----CCHHHHHHHHHHc------CCeEEEEccCCCCCHHHHHH
Q 040481          133 LESIR--N----VSTEEGKSLAEAE------GLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus       133 l~~~~--~----~~~~~~~~~~~~~------~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +....  +    ...++...++...      +++++++||++|.|+.++++
T Consensus       167 l~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          167 DPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             CcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            85321  1    1122333444444      35799999999999999765

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.84  E-value=2.7e-21  Score=163.66  Aligned_cols=153  Identities=19%  Similarity=0.193  Sum_probs=104.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh--------HHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV--------TSAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~   85 (222)
                      ..++|+++|++|+|||||+|+|++.... ....++++.+.....+.+++.  .+.+|||||...+...        ...+
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~--~v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGI--PVQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETTE--EEEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECCE--EEEEEECCccccchhHHHHHHHHHHhhh
Confidence            4579999999999999999999987643 333345455555455566664  5679999997655433        2335


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      +..+|++++|+|++++.+... ..|+..+..     .|+++|+||+|+.......  ....+.  .+.+++++||++|.|
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~~-----~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~G  370 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD-QEIYEQVKH-----RPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQG  370 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH-HHHHHHHTT-----SCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBS
T ss_pred             hhcCCEEEEEeccCCCCCHHH-HHHHHhccC-----CcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCC
Confidence            788999999999999876544 455555532     5999999999997544332  111111  356899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYS  179 (222)
Q Consensus       166 i~~~~~~i~~~~~~  179 (222)
                      +++++++|.+.+..
T Consensus       371 i~eL~~~i~~~~~~  384 (462)
T 3geh_A          371 IDSLETAILEIVQT  384 (462)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999887654

>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=99.84  E-value=2.8e-21  Score=165.04  Aligned_cols=154  Identities=16%  Similarity=0.101  Sum_probs=99.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-----------------------------CCCccceeEEEEEEEECCeE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-----------------------------SKATIGVEFQTQSMEIDGKE   64 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   64 (222)
                      ...++|+++|++++|||||+++|++......                             .....++++......++...
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            3568999999999999999999976511000                             00111233333333344455


Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHH------HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDS------ISRWLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~------~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                      +.+.||||||++.|......++..+|++|+|||++++.++..      ..+.+..+...  ...|+++|+||+|+.+.++
T Consensus       111 ~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~--~~~~iIvviNK~Dl~~~~~  188 (483)
T 3p26_A          111 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNVDWSQ  188 (483)
T ss_dssp             CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT--TCCCEEEEEECGGGGTTCH
T ss_pred             ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc--CCCcEEEEEECcCcccchH
Confidence            678899999999999999999999999999999999754322      12222222221  1236899999999976433


Q ss_pred             CCHHHHH----HHHHHc-----CCeEEEEccCCCCCHHHH
Q 040481          139 VSTEEGK----SLAEAE-----GLFFMETSALDSTNVKSA  169 (222)
Q Consensus       139 ~~~~~~~----~~~~~~-----~~~~~~~sa~~~~~i~~~  169 (222)
                      ...+++.    .+....     +++++++||++|.|+.++
T Consensus       189 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          189 QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             HHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence            3333332    233322     467999999999999863

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.84  E-value=6.2e-21  Score=151.67  Aligned_cols=160  Identities=16%  Similarity=0.189  Sum_probs=92.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-C-------CCccceeEEEEEEEECCeEEEEEEEeCCCcch-------
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-S-------KATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------   77 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------   77 (222)
                      +...++|+++|.+|+|||||+|+|++...... +       .++.+.+.....+..++..+.+.+|||||...       
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~   84 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC   84 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTT
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhh
Confidence            34579999999999999999999887665333 2       34445455544444455557899999999632       


Q ss_pred             hhhhH-------HHhhc-------------CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           78 FRAVT-------SAYYR-------------GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        78 ~~~~~-------~~~~~-------------~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      +....       ..++.             .+|+++++++.........-..++..+..    .+|+++|+||+|+....
T Consensus        85 ~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~  160 (274)
T 3t5d_A           85 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPE  160 (274)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHH
Confidence            22222       23333             37899999977653222222344555543    68999999999986432


Q ss_pred             CCC--HHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          138 NVS--TEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       138 ~~~--~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ...  .+.+.+.....+++++++||.++.|+.+++.+|.+.
T Consensus       161 e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~  201 (274)
T 3t5d_A          161 ECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  201 (274)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHT
T ss_pred             HHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcC
Confidence            221  123445556678999999999999999998877653

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.84  E-value=1.9e-21  Score=164.20  Aligned_cols=152  Identities=18%  Similarity=0.130  Sum_probs=98.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcc--------hhhhhHHHhhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE--------RFRAVTSAYYRG   88 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~   88 (222)
                      ++|+++|.+|||||||+|+|.+...... ..+.+++.......+...+..+.+|||||..        .+...+..+++.
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v-~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~   82 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIV-EDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDE   82 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceee-cCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHh
Confidence            6899999999999999999998765422 2222333333333333334568899999975        556677788999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCCCCHH
Q 040481           89 AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDSTNVK  167 (222)
Q Consensus        89 ~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  167 (222)
                      +|++|+|+|+.++.++.. ..+...+.   ..+.|+++|+||+|+......    ..++. .++. .++++||.+|.|+.
T Consensus        83 ad~il~vvD~~~~~~~~d-~~~~~~l~---~~~~pvilv~NK~D~~~~~~~----~~~~~-~lg~~~~~~iSA~~g~gv~  153 (436)
T 2hjg_A           83 ADVIIFMVNGREGVTAAD-EEVAKILY---RTKKPVVLAVNKLDNTEMRAN----IYDFY-SLGFGEPYPISGTHGLGLG  153 (436)
T ss_dssp             CSEEEEEEETTTCSCHHH-HHHHHHHT---TCCSCEEEEEECCCC-----C----CCSSG-GGSSCCCEECBTTTTBTHH
T ss_pred             CCEEEEEEeCCCCCCHHH-HHHHHHHH---HcCCCEEEEEECccCccchhh----HHHHH-HcCCCCeEEEeCcCCCChH
Confidence            999999999998876543 22333333   256799999999998643211    11222 3444 68999999999999


Q ss_pred             HHHHHHHHHHH
Q 040481          168 SAFEIVIREIY  178 (222)
Q Consensus       168 ~~~~~i~~~~~  178 (222)
                      ++++++.+.+.
T Consensus       154 ~L~~~i~~~l~  164 (436)
T 2hjg_A          154 DLLDAVAEHFK  164 (436)
T ss_dssp             HHHHHHHHTGG
T ss_pred             HHHHHHHHhcC
Confidence            99999887664

>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=99.84  E-value=3.2e-20  Score=156.81  Aligned_cols=160  Identities=24%  Similarity=0.175  Sum_probs=106.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhh-----------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAV-----------   81 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------   81 (222)
                      ...++|+++|++|||||||+++|++.... ....+.++.+.....+.+++..  +.+|||+|.......           
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~~--~~l~Dt~G~~~~~~~~~~~~e~~~~~  255 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRK--YVFVDTAGLRRKSRVEPRTVEKYSNY  255 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEE--EEESSCSCC-----------CCSCCH
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCEE--EEEEECCCCccccccchhhHHHHHHH
Confidence            34689999999999999999999987642 2223333444445566677754  679999997432211           


Q ss_pred             -HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH-HHHH----HcCCeE
Q 040481           82 -TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK-SLAE----AEGLFF  155 (222)
Q Consensus        82 -~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~-~~~~----~~~~~~  155 (222)
                       ....+..+|++++|+|+.++.+.... .+...+..   .+.|+++|+||+|+.+.+....++.. .+..    ..++++
T Consensus       256 ~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (439)
T 1mky_A          256 RVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPL  331 (439)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCE
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcE
Confidence             23467889999999999987665542 23333332   45799999999999765443333332 2222    336789


Q ss_pred             EEEccCCCCCHHHHHHHHHHHHHH
Q 040481          156 METSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       156 ~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      +++||++|.|++++|+.+.+.+..
T Consensus       332 ~~~SA~~g~gv~~l~~~i~~~~~~  355 (439)
T 1mky_A          332 IFTSADKGWNIDRMIDAMNLAYAS  355 (439)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999988875443

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.84  E-value=5e-23  Score=176.41  Aligned_cols=157  Identities=19%  Similarity=0.192  Sum_probs=111.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.++|+++|++++|||||+++|.+..+.....++++.++....+..+ ....+.||||||++.|..++..++..+|++|+
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            45789999999999999999998876654444554444333333332 12357899999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHH---HHHc--CCeEEEEccCCCCCHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTEEGKSL---AEAE--GLFFMETSALDSTNVK  167 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~---~~~~--~~~~~~~sa~~~~~i~  167 (222)
                      |||++++........| .   .....++|+++++||+|+.+...  +..+ ...+   +..+  .++++++||++|.|++
T Consensus        82 VVDa~dg~~~qt~e~l-~---~~~~~~vPiIVViNKiDl~~~~~~~v~~~-l~~~~~~~e~~~~~~~iv~vSAktG~GI~  156 (537)
T 3izy_P           82 VVAADDGVMKQTVESI-Q---HAKDAHVPIVLAINKCDKAEADPEKVKKE-LLAYDVVCEDYGGDVQAVHVSALTGENMM  156 (537)
T ss_dssp             ECBSSSCCCHHHHHHH-H---HHHTTTCCEEECCBSGGGTTTSCCSSSSH-HHHTTSCCCCSSSSEEECCCCSSSSCSSH
T ss_pred             EEECCCCccHHHHHHH-H---HHHHcCCcEEEEEecccccccchHHHHHH-HHhhhhhHHhcCCCceEEEEECCCCCCch
Confidence            9999997654333322 2   22235679999999999974322  2221 1111   1111  3579999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          168 SAFEIVIREI  177 (222)
Q Consensus       168 ~~~~~i~~~~  177 (222)
                      ++|+.+...+
T Consensus       157 eLle~I~~l~  166 (537)
T 3izy_P          157 ALAEATIALA  166 (537)
T ss_dssp             HHHHHHHHHH
T ss_pred             hHHHHHHHhh
Confidence            9999888754

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.83  E-value=7e-20  Score=148.05  Aligned_cols=127  Identities=14%  Similarity=0.162  Sum_probs=100.7

Q ss_pred             EEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECC----------ChhhHHHHHHHHHHHHhcCC-CC
Q 040481           53 FQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDIT----------RRTTFDSISRWLDELKTHSD-TT  121 (222)
Q Consensus        53 ~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~i~~~~~-~~  121 (222)
                      +....+.+.+  +.+++||++|++.+...|..+++.++++|||||++          +..+|+....|+..+..... .+
T Consensus       157 i~~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~  234 (327)
T 3ohm_A          157 IIEYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQN  234 (327)
T ss_dssp             EEEEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTT
T ss_pred             EEEEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCC
Confidence            3444444444  77899999999999999999999999999999665          56678887778877765433 57


Q ss_pred             CcEEEEEeCCCCCcCC----------------CCCHHHHHHHHH----------HcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481          122 VARMLVGNKCDLESIR----------------NVSTEEGKSLAE----------AEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       122 ~p~iiv~nK~Dl~~~~----------------~~~~~~~~~~~~----------~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      +|+++++||+|+.+.+                ....+++.+++.          ..++.+++|||+++.||.++|..+.+
T Consensus       235 ~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~  314 (327)
T 3ohm_A          235 SSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKD  314 (327)
T ss_dssp             CEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHH
T ss_pred             ceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHH
Confidence            8999999999985432                466777777743          34567899999999999999999999


Q ss_pred             HHHHHh
Q 040481          176 EIYSNV  181 (222)
Q Consensus       176 ~~~~~~  181 (222)
                      .++...
T Consensus       315 ~Il~~~  320 (327)
T 3ohm_A          315 TILQLN  320 (327)
T ss_dssp             HHHHTT
T ss_pred             HHHHHh
Confidence            887643

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.83  E-value=5.9e-21  Score=143.64  Aligned_cols=116  Identities=19%  Similarity=0.352  Sum_probs=87.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC---CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcC-
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH---SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRG-   88 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~-   88 (222)
                      ....++|+++|++|||||||+++|.+..+...   ..++.+.++         ..+.+.+||+||...+...+..++.. 
T Consensus        45 ~~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~  115 (193)
T 2ged_A           45 GSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTR  115 (193)
T ss_dssp             -CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------CC---------CCTTCSEEEETTCCBSSCCHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeeee---------cCCeEEEEECCCCchHHHHHHHHHHhh
Confidence            35668999999999999999999998875431   222222111         34567899999998887777777766 


Q ss_pred             ---CCEEEEEEECC-ChhhHHHHHHHHHHHHhc----CCCCCcEEEEEeCCCCCcCC
Q 040481           89 ---AVGALIVYDIT-RRTTFDSISRWLDELKTH----SDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        89 ---~d~vi~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~p~iiv~nK~Dl~~~~  137 (222)
                         +|++|+|||++ +..++..+..|+..+...    ...++|+++|+||+|+.+..
T Consensus       116 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          116 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             GGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             cccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence               89999999999 899999998888777543    33578999999999997543

>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=99.83  E-value=5.7e-20  Score=147.92  Aligned_cols=156  Identities=21%  Similarity=0.124  Sum_probs=105.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcc-h--------hhhhHHH
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE-R--------FRAVTSA   84 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~--------~~~~~~~   84 (222)
                      +..+|+|+|++|+|||||+++|++...... ..+.++.......+..+  ...+.+|||||.. .        +......
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~--~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~   84 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEG--AYQAIYVDTPGLHMEEKRAINRLMNKAASS   84 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEET--TEEEEEESSSSCCHHHHHHHHHHHTCCTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEEC--CeeEEEEECcCCCccchhhHHHHHHHHHHH
Confidence            345899999999999999999999875322 22222222222233333  3567899999987 2        2233445


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEEccCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGL-FFMETSALDS  163 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~  163 (222)
                      .++.+|++++|+|+++ .  .....|+.....  ..+.|+++++||.|+........+...++...++. .++++||+++
T Consensus        85 ~l~~~D~vl~Vvd~~~-~--~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g  159 (301)
T 1ega_A           85 SIGDVELVIFVVEGTR-W--TPDDEMVLNKLR--EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETG  159 (301)
T ss_dssp             CCCCEEEEEEEEETTC-C--CHHHHHHHHHHH--SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTT
T ss_pred             HHhcCCEEEEEEeCCC-C--CHHHHHHHHHHH--hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCC
Confidence            6788999999999977 2  233334332222  24579999999999875222223344455555565 6999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREI  177 (222)
Q Consensus       164 ~~i~~~~~~i~~~~  177 (222)
                      .|++++++.+...+
T Consensus       160 ~~v~~l~~~i~~~l  173 (301)
T 1ega_A          160 LNVDTIAAIVRKHL  173 (301)
T ss_dssp             TTHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHhC
Confidence            99999999887644

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.83  E-value=7e-20  Score=149.94  Aligned_cols=119  Identities=18%  Similarity=0.214  Sum_probs=93.9

Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECC----------ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCC
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDIT----------RRTTFDSISRWLDELKTHS-DTTVARMLVGNKC  131 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~  131 (222)
                      ..+.+++||++|++.+...|..+++.++++|+|||++          +..+|+....|+..+.... ...+|+++|+||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5788999999999999999999999999999999998          7788999999998887653 2568999999999


Q ss_pred             CCCcCCC--C-------------------CHHHHHHHHHH----------------cCCeEEEEccCCCCCHHHHHHHHH
Q 040481          132 DLESIRN--V-------------------STEEGKSLAEA----------------EGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus       132 Dl~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |+.+.+.  +                   ..+++..++..                ..+.+++|||+++.||+++|..+.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            9853211  1                   13556666432                124468999999999999999999


Q ss_pred             HHHHHHh
Q 040481          175 REIYSNV  181 (222)
Q Consensus       175 ~~~~~~~  181 (222)
                      +.++...
T Consensus       341 ~~I~~~~  347 (354)
T 2xtz_A          341 ETLRRRN  347 (354)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887543

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.82  E-value=3.8e-21  Score=158.43  Aligned_cols=164  Identities=16%  Similarity=0.273  Sum_probs=91.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCC--------CccceeEEEEEEEECCeEEEEEEEeCCCc-------ch
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSK--------ATIGVEFQTQSMEIDGKEVKAQIWDTAGQ-------ER   77 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~   77 (222)
                      ...++|+|+|++|+|||||+++|++.... ..+.        ++.+.......+..++..+.+.+|||||.       +.
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~  114 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC  114 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC-------------
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHH
Confidence            44689999999999999999998765432 2221        33333333333334566678999999998       55


Q ss_pred             hhhhHH-------HhhcCCC-------------EEEEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481           78 FRAVTS-------AYYRGAV-------------GALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus        78 ~~~~~~-------~~~~~~d-------------~vi~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                      +..++.       .++..++             +++|+++.. ..++..+. .|+..+    ..++|+|+|+||+|+...
T Consensus       115 ~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~  189 (361)
T 2qag_A          115 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTL  189 (361)
T ss_dssp             -CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCH
Confidence            555554       5554433             344444431 33444443 444443    256899999999999764


Q ss_pred             CCCCH--HHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHHHhhh
Q 040481          137 RNVST--EEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       137 ~~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                      ..+..  +.+..++...+++++++||+++.+ ++.|..+.+.+.+..+.
T Consensus       190 ~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~ip~  237 (361)
T 2qag_A          190 KERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASIPF  237 (361)
T ss_dssp             HHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHTCSC
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcCCC
Confidence            44433  456667777789999999999999 88899888888766543

>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=99.82  E-value=3.5e-20  Score=154.62  Aligned_cols=159  Identities=15%  Similarity=0.080  Sum_probs=108.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcC-------CCC-------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEF-------NPH-------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA   80 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   80 (222)
                      ..++|+++|++++|||||+++|++...       ...       .....+.++......+......+.+|||||++.|..
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~   81 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHH
Confidence            458999999999999999999987410       000       001223344444444544456788999999999988


Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCC---CCHHHHHHHHHHcC----
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRN---VSTEEGKSLAEAEG----  152 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~---~~~~~~~~~~~~~~----  152 (222)
                      .....+..+|++|+|+|++++...+....| ..+..   .++| +++++||+|+.+...   ...+++++++...+    
T Consensus        82 ~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~  157 (397)
T 1d2e_A           82 NMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGE  157 (397)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTT
T ss_pred             HHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcc
Confidence            888889999999999999986543333333 33433   3567 678999999974211   11234556666655    


Q ss_pred             -CeEEEEccCCCCC----------HHHHHHHHHHHH
Q 040481          153 -LFFMETSALDSTN----------VKSAFEIVIREI  177 (222)
Q Consensus       153 -~~~~~~sa~~~~~----------i~~~~~~i~~~~  177 (222)
                       ++++++||++|.|          +.++++.+.+.+
T Consensus       158 ~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          158 ETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             TSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             cCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence             6899999999764          677777665543

>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=99.82  E-value=5.7e-20  Score=155.02  Aligned_cols=155  Identities=20%  Similarity=0.196  Sum_probs=105.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC--CC----------CCCc-------------------cceeEEEEEEEEC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN--PH----------SKAT-------------------IGVEFQTQSMEID   61 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~--~~----------~~~~-------------------~~~~~~~~~~~~~   61 (222)
                      ....++|+++|++++|||||+++|++....  ..          ...+                   .+.+.......+.
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~  100 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS  100 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee
Confidence            355689999999999999999999865411  00          0011                   0111222222233


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCC-cEEEEEeCCCCCcCCC--
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTV-ARMLVGNKCDLESIRN--  138 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p~iiv~nK~Dl~~~~~--  138 (222)
                      .....+.+|||||++.|...+..++..+|++|+|+|++++.. ....+++..+...   +. |+++|+||+|+.+...  
T Consensus       101 ~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~---~~~~iIvviNK~Dl~~~~~~~  176 (434)
T 1zun_B          101 TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLL---GIKHIVVAINKMDLNGFDERV  176 (434)
T ss_dssp             CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHT---TCCEEEEEEECTTTTTSCHHH
T ss_pred             cCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEEcCcCCcccHHH
Confidence            344668899999999998888888999999999999998753 2234444444332   23 5899999999975221  


Q ss_pred             C--CHHHHHHHHHHcC-----CeEEEEccCCCCCHHHHHH
Q 040481          139 V--STEEGKSLAEAEG-----LFFMETSALDSTNVKSAFE  171 (222)
Q Consensus       139 ~--~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~~  171 (222)
                      +  ..++...++...+     ++++++||++|.|+++++.
T Consensus       177 ~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          177 FESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             HHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             HHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence            1  1234556666666     6799999999999998543

>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=99.82  E-value=4.5e-21  Score=161.79  Aligned_cols=155  Identities=17%  Similarity=0.213  Sum_probs=103.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC--cCCCC-----------------------------CCCccceeEEEEEEEECC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN--EFNPH-----------------------------SKATIGVEFQTQSMEIDG   62 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   62 (222)
                      ...++|+++|+.++|||||+++|+..  .+...                             ....++  .......++.
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giT--i~~~~~~~~~   81 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVT--INLTFMRFET   81 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-------------CEEEC
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCce--eEeeEEEEec
Confidence            35689999999999999999999864  22110                             011222  2222233444


Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhc----CCCCC-cEEEEEeCCCCCcCC
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH----SDTTV-ARMLVGNKCDLESIR  137 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~----~~~~~-p~iiv~nK~Dl~~~~  137 (222)
                      ..+.+.+|||||++.|...+..++..+|++|+|||+++ .+|+.+..|.......    ...++ |+++++||+|+.+..
T Consensus        82 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~  160 (435)
T 1jny_A           82 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPP  160 (435)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSST
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCcc
Confidence            45678899999999999888899999999999999998 6666543332221111    11233 588999999997521


Q ss_pred             ------CCCHHHHHHHHHHcC-----CeEEEEccCCCCCHHHHHH
Q 040481          138 ------NVSTEEGKSLAEAEG-----LFFMETSALDSTNVKSAFE  171 (222)
Q Consensus       138 ------~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~~  171 (222)
                            ....+++..++...+     ++++++||++|.|+.+++.
T Consensus       161 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          161 YDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             ccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence                  112344566666655     7799999999999986653

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.82  E-value=3.7e-19  Score=147.39  Aligned_cols=125  Identities=16%  Similarity=0.166  Sum_probs=99.2

Q ss_pred             EEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCC----------hhhHHHHHHHHHHHHhcC-CCCCcE
Q 040481           56 QSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITR----------RTTFDSISRWLDELKTHS-DTTVAR  124 (222)
Q Consensus        56 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~p~  124 (222)
                      ..+.+++  +.+++||++|++.+...|..+++.++++|||||+++          ..+|+.+..|+..+.... ...+|+
T Consensus       210 ~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~pi  287 (402)
T 1azs_C          210 TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISV  287 (402)
T ss_dssp             EEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCE
T ss_pred             EEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeE
Confidence            3444554  778999999999999999999999999999999999          889999999999887753 367899


Q ss_pred             EEEEeCCCCCcCCC---C---------------------------CHHHHHHHH-----HH--------cCCeEEEEccC
Q 040481          125 MLVGNKCDLESIRN---V---------------------------STEEGKSLA-----EA--------EGLFFMETSAL  161 (222)
Q Consensus       125 iiv~nK~Dl~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~sa~  161 (222)
                      +||+||.|+.+.+.   +                           ..+++..|+     ..        ..+.+++|||+
T Consensus       288 iLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~  367 (402)
T 1azs_C          288 ILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAV  367 (402)
T ss_dssp             EEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTT
T ss_pred             EEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEee
Confidence            99999999853221   1                           134555553     22        24667899999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhh
Q 040481          162 DSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      ++.||+++|..+.+.++....
T Consensus       368 d~~nV~~vF~~v~~~I~~~~l  388 (402)
T 1azs_C          368 DTENIRRVFNDCRDIIQRMHL  388 (402)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcCHHHHHHHHHHHHHHHHH
Confidence            999999999998887765543

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.82  E-value=1.3e-19  Score=148.76  Aligned_cols=126  Identities=17%  Similarity=0.202  Sum_probs=94.2

Q ss_pred             EEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCC----------hhhHHHHHHHHHHHHhcC-CCCC
Q 040481           54 QTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITR----------RTTFDSISRWLDELKTHS-DTTV  122 (222)
Q Consensus        54 ~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~i~~~~-~~~~  122 (222)
                      ....+.++  .+.+++||++|++.+...|..+++.++++|||||+++          ..+|.....|+..+.... ..++
T Consensus       192 ~~~~~~~~--~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~  269 (362)
T 1zcb_A          192 HEYDFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNV  269 (362)
T ss_dssp             EEEEEEET--TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTS
T ss_pred             EEEEeeeC--CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCC
Confidence            33444444  3678899999999999999999999999999999999          678999988888887653 3568


Q ss_pred             cEEEEEeCCCCCcCC----------------CCCHHHHHHHHH-----------HcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481          123 ARMLVGNKCDLESIR----------------NVSTEEGKSLAE-----------AEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       123 p~iiv~nK~Dl~~~~----------------~~~~~~~~~~~~-----------~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |+|+++||.|+.+..                .+..+++..++.           ..++.+++|||+++.||.++|.++.+
T Consensus       270 piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~  349 (362)
T 1zcb_A          270 SIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKD  349 (362)
T ss_dssp             EEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHH
T ss_pred             CEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHH
Confidence            999999999985322                256677777652           34577999999999999999999999


Q ss_pred             HHHHHh
Q 040481          176 EIYSNV  181 (222)
Q Consensus       176 ~~~~~~  181 (222)
                      .++...
T Consensus       350 ~i~~~~  355 (362)
T 1zcb_A          350 TILHDN  355 (362)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887543

>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=99.82  E-value=9.1e-21  Score=160.85  Aligned_cols=155  Identities=16%  Similarity=0.086  Sum_probs=99.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC--------cchhhhhHHHh
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG--------QERFRAVTSAY   85 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~~~   85 (222)
                      ...++|+|+|.+|||||||+|+|++...... ..+.+++..............+.+|||||        .+.+...+..+
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v-~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~   99 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERISIV-EDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIA   99 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCccc-CCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhh
Confidence            3457999999999999999999998776422 22334444444444554556788999999        66677778889


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTN  165 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  165 (222)
                      ++.+|++|+|+|..++.+  ....|+..+..  ..++|+++|+||+|+.+...    ...++.......++++||.+|.|
T Consensus       100 ~~~ad~il~VvD~~~~~~--~~d~~l~~~l~--~~~~pvilV~NK~D~~~~~~----~~~e~~~lg~~~~~~iSA~~g~g  171 (456)
T 4dcu_A          100 MDEADVIIFMVNGREGVT--AADEEVAKILY--RTKKPVVLAVNKLDNTEMRA----NIYDFYSLGFGEPYPISGTHGLG  171 (456)
T ss_dssp             HHHCSEEEEEEESSSCSC--HHHHHHHHHHT--TCCSCEEEEEECC-------------CCSGGGSSSSEEECCTTTCTT
T ss_pred             HhhCCEEEEEEeCCCCCC--hHHHHHHHHHH--HcCCCEEEEEECccchhhhh----hHHHHHHcCCCceEEeecccccc
Confidence            999999999999987643  22333333322  25689999999999864221    11112211122467999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREI  177 (222)
Q Consensus       166 i~~~~~~i~~~~  177 (222)
                      +.++++.+.+.+
T Consensus       172 v~~L~~~i~~~l  183 (456)
T 4dcu_A          172 LGDLLDAVAEHF  183 (456)
T ss_dssp             HHHHHHHHHTTG
T ss_pred             hHHHHHHHHhhc
Confidence            999999887654

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.82  E-value=5.2e-20  Score=151.95  Aligned_cols=147  Identities=9%  Similarity=0.020  Sum_probs=105.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      +|+++|++++|||||+++|+        ...++.+....  .+......+.+|||||++.|.......++.+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~--------~~giTi~~~~~--~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG--------KKGTSSDITMY--NNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS--------EEEEESSSEEE--EECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH--------hCCEEEEeeEE--EEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            99999999999999999998        11122222222  233344568899999999998877888899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCCCCCcE-EEEEe-CCCCCcCCCCCH--HHHHHHHHHc---CCeEEE--EccCC---CCC
Q 040481           98 ITRRTTFDSISRWLDELKTHSDTTVAR-MLVGN-KCDLESIRNVST--EEGKSLAEAE---GLFFME--TSALD---STN  165 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~~~~~p~-iiv~n-K~Dl~~~~~~~~--~~~~~~~~~~---~~~~~~--~sa~~---~~~  165 (222)
                       ++. .+....+++..+...   ++|. ++++| |+|+ +...+..  +++.++....   .+++++  +||++   +.|
T Consensus        93 -~~g-~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~g  166 (370)
T 2elf_A           93 -PQG-LDAHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEG  166 (370)
T ss_dssp             -TTC-CCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTT
T ss_pred             -CCC-CcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCC
Confidence             543 345556666655543   4677 88899 9999 4322221  3444444433   378999  99999   999


Q ss_pred             HHHHHHHHHHHHHHH
Q 040481          166 VKSAFEIVIREIYSN  180 (222)
Q Consensus       166 i~~~~~~i~~~~~~~  180 (222)
                      ++++++.|.+.+...
T Consensus       167 i~~L~~~l~~~~~~~  181 (370)
T 2elf_A          167 VDELKARINEVAEKI  181 (370)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccc
Confidence            999999888876543

>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=99.81  E-value=1.5e-20  Score=157.27  Aligned_cols=150  Identities=15%  Similarity=0.116  Sum_probs=103.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcC--------cCCCC-------CCCccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARN--------EFNPH-------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~--------~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      .....++|+++|++++|||||+++|++.        .+...       .....+.++......+......+.+|||||++
T Consensus         7 ~~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~   86 (405)
T 2c78_A            7 RTKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHA   86 (405)
T ss_dssp             --CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSG
T ss_pred             CCCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChH
Confidence            3456689999999999999999999873        11100       00122333333344444445678899999999


Q ss_pred             hhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcC
Q 040481           77 RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNV---STEEGKSLAEAEG  152 (222)
Q Consensus        77 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~  152 (222)
                      .|.......+..+|++|+|+|++++... ...+|+..+..   .++| +++++||+|+.+....   ..+++.+++...+
T Consensus        87 ~f~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~---~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~  162 (405)
T 2c78_A           87 DYIKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE  162 (405)
T ss_dssp             GGHHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhc
Confidence            9988888899999999999999987543 33555555544   3567 7899999999742111   1224555666554


Q ss_pred             -----CeEEEEccCCCCC
Q 040481          153 -----LFFMETSALDSTN  165 (222)
Q Consensus       153 -----~~~~~~sa~~~~~  165 (222)
                           ++++++||++|.|
T Consensus       163 ~~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          163 FPGDEVPVIRGSALLALE  180 (405)
T ss_dssp             SCTTTSCEEECCHHHHHH
T ss_pred             ccccCCCEEEccHHHhhh
Confidence                 6899999999987

>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=99.81  E-value=2.3e-19  Score=155.87  Aligned_cols=159  Identities=16%  Similarity=0.142  Sum_probs=105.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC----CCccceeEEEEEE------------EECCeEEEEEEEeCCCcchh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHS----KATIGVEFQTQSM------------EIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~----~~~~~~~~~~~~~------------~~~~~~~~~~i~D~~G~~~~   78 (222)
                      +.++|+++|++++|||||+++|++.......    .++.+..+.....            ..+.....+.||||||++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            4579999999999999999999876543221    1222221111000            00001124789999999999


Q ss_pred             hhhHHHhhcCCCEEEEEEECCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC------------HHH
Q 040481           79 RAVTSAYYRGAVGALIVYDITR---RTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS------------TEE  143 (222)
Q Consensus        79 ~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~------------~~~  143 (222)
                      ...+...++.+|++|+|||+++   +++++.+..    +..   .++|+++++||+|+.......            .+.
T Consensus        84 ~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~  156 (594)
T 1g7s_A           84 TTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQ  156 (594)
T ss_dssp             TTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHH
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHH
Confidence            8888888899999999999999   666554432    222   457999999999996422110            000


Q ss_pred             -----------HHHHHHHc---------------CCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          144 -----------GKSLAEAE---------------GLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       144 -----------~~~~~~~~---------------~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                                 ........               .++++++||++|.|++++++++...+...
T Consensus       157 v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~  219 (594)
T 1g7s_A          157 VQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcccc
Confidence                       11111111               23799999999999999999998876543

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.81  E-value=1.9e-19  Score=146.00  Aligned_cols=116  Identities=16%  Similarity=0.243  Sum_probs=94.1

Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECC----------ChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCC
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDIT----------RRTTFDSISRWLDELKTHSD-TTVARMLVGNKCD  132 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~D  132 (222)
                      .+.+++||++|++.+...|..+++.++++|||||++          +..+|.....|+..+..... .++|+++++||.|
T Consensus       160 ~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~D  239 (340)
T 4fid_A          160 DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMD  239 (340)
T ss_dssp             SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHH
T ss_pred             eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECch
Confidence            477899999999999999999999999999999998          67788888888877766543 6789999999999


Q ss_pred             CCcCC---------------CCCHHHHHHHHHH-c--------------------------CCeEEEEccCCCCCHHHHH
Q 040481          133 LESIR---------------NVSTEEGKSLAEA-E--------------------------GLFFMETSALDSTNVKSAF  170 (222)
Q Consensus       133 l~~~~---------------~~~~~~~~~~~~~-~--------------------------~~~~~~~sa~~~~~i~~~~  170 (222)
                      +.+.+               ....+++.+++.. +                          .+.++++||+++.+|..+|
T Consensus       240 L~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF  319 (340)
T 4fid_A          240 LFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVF  319 (340)
T ss_dssp             HHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHHH
T ss_pred             hhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHHH
Confidence            84311               1235555544432 2                          3668999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          171 EIVIREIYS  179 (222)
Q Consensus       171 ~~i~~~~~~  179 (222)
                      ..+.+.++.
T Consensus       320 ~~v~~~Il~  328 (340)
T 4fid_A          320 MLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998887

>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=99.80  E-value=1.8e-20  Score=159.34  Aligned_cols=155  Identities=18%  Similarity=0.163  Sum_probs=90.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCc--CCC-----------------------------CCCCccceeEEEEEEEECC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNE--FNP-----------------------------HSKATIGVEFQTQSMEIDG   62 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~~   62 (222)
                      ...++|+++|+.++|||||+++|+...  +..                             +....++.+.....+..+ 
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~-  119 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETE-  119 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECS-
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecC-
Confidence            566899999999999999999997521  110                             001112222222223333 


Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChh---hHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCC-
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRT---TFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIR-  137 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~-  137 (222)
                       ...+.+|||||++.|.......+..+|++|+|||++++.   +|+...+|...+......++| +++++||+|+.... 
T Consensus       120 -~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~  198 (467)
T 1r5b_A          120 -HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQW  198 (467)
T ss_dssp             -SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS
T ss_pred             -CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccc
Confidence             456889999999999888888899999999999999873   332222233222222224567 89999999995421 


Q ss_pred             -----CCCHHHHHHHHHHc-------CCeEEEEccCCCCCHHHHH
Q 040481          138 -----NVSTEEGKSLAEAE-------GLFFMETSALDSTNVKSAF  170 (222)
Q Consensus       138 -----~~~~~~~~~~~~~~-------~~~~~~~sa~~~~~i~~~~  170 (222)
                           ....+++..++...       +++++++||++|.|+.+++
T Consensus       199 ~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          199 SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             cHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence                 11122455555554       4679999999999998866

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.80  E-value=1.1e-19  Score=156.10  Aligned_cols=116  Identities=18%  Similarity=0.149  Sum_probs=82.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCC------------------C----CCCCccceeEEEEEEEECCeEEEEEEEe
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFN------------------P----HSKATIGVEFQTQSMEIDGKEVKAQIWD   71 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~------------------~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D   71 (222)
                      ....+|+|+|++++|||||+++|+.....                  .    +.....+.......+.+.  .+.+.+||
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~--~~~i~liD   88 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYK--DYLINLLD   88 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEET--TEEEEEEC
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeC--CEEEEEEE
Confidence            45679999999999999999999621100                  0    000111222222333333  46688999


Q ss_pred             CCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           72 TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        72 ~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |||+..+...+..+++.+|++|+|+|++++.+......|. .+..   .++|+++|+||+|+..
T Consensus        89 TPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~~---~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           89 TPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCRL---RHTPIMTFINKMDRDT  148 (528)
T ss_dssp             CCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHHT---TTCCEEEEEECTTSCC
T ss_pred             CCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEeCCCCcc
Confidence            9999999999999999999999999999987766655553 3322   4579999999999863

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.80  E-value=1.9e-20  Score=163.51  Aligned_cols=153  Identities=15%  Similarity=0.119  Sum_probs=100.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-----------------------------CccceeEEEEEEEECCeE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-----------------------------ATIGVEFQTQSMEIDGKE   64 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   64 (222)
                      ...++|+++|++++|||||+++|++........                             ...|+++......+....
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~  244 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  244 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC
Confidence            456899999999999999999998763321110                             001222222222333344


Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---H---HHHHHHHHHHHhcCCCCC-cEEEEEeCCCCCcCC
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---F---DSISRWLDELKTHSDTTV-ARMLVGNKCDLESIR  137 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~-p~iiv~nK~Dl~~~~  137 (222)
                      +.+.||||||++.+...+...+..+|++|+|||++++..   |   ......+..+..   .++ |++||+||+|+.+..
T Consensus       245 ~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~---lgi~~iIVVvNKiDl~~~~  321 (611)
T 3izq_1          245 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS---LGIHNLIIAMNKMDNVDWS  321 (611)
T ss_dssp             CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHT---TTCCEEEEEEECTTTTTTC
T ss_pred             ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHH---cCCCeEEEEEecccccchh
Confidence            678899999999999888899999999999999988521   1   111222222222   233 589999999997633


Q ss_pred             CCCHH----HHHHHHHHc-----CCeEEEEccCCCCCHHHH
Q 040481          138 NVSTE----EGKSLAEAE-----GLFFMETSALDSTNVKSA  169 (222)
Q Consensus       138 ~~~~~----~~~~~~~~~-----~~~~~~~sa~~~~~i~~~  169 (222)
                      ....+    ++..+....     +++++++||++|.|+.++
T Consensus       322 ~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          322 QQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            22222    233333333     468999999999999876

>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=99.79  E-value=1.7e-21  Score=165.63  Aligned_cols=152  Identities=18%  Similarity=0.193  Sum_probs=104.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.++|+++|+.++|||||+++|.+..+.....+.++.+.....+..++  ..+.||||||++.|..++...+..+|++|+
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aIL   80 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVVL   80 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEEE
Confidence            457899999999999999999987654433333222222222222233  357899999999999888888999999999


Q ss_pred             EEECCCh---hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC--CCCCHHH--HHHHHHHc--CCeEEEEccCCCCC
Q 040481           95 VYDITRR---TTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI--RNVSTEE--GKSLAEAE--GLFFMETSALDSTN  165 (222)
Q Consensus        95 v~d~~~~---~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~--~~~~~~~--~~~~~~~~--~~~~~~~sa~~~~~  165 (222)
                      |||++++   ++++.    +..+..   .++|+++++||+|+.+.  ..+..+.  ...++..+  .++++++||++|.|
T Consensus        81 VVda~~g~~~qT~e~----l~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~g  153 (501)
T 1zo1_I           81 VVAADDGVMPQTIEA----IQHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTG  153 (501)
T ss_dssp             EEETTTBSCTTTHHH----HHHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTT
T ss_pred             EeecccCccHHHHHH----HHHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccC
Confidence            9999884   44332    222222   45799999999999642  1111110  00111222  37899999999999


Q ss_pred             HHHHHHHHHH
Q 040481          166 VKSAFEIVIR  175 (222)
Q Consensus       166 i~~~~~~i~~  175 (222)
                      ++++|+++..
T Consensus       154 I~eLle~I~~  163 (501)
T 1zo1_I          154 IDELLDAILL  163 (501)
T ss_dssp             CTTHHHHTTT
T ss_pred             cchhhhhhhh
Confidence            9999998764

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.79  E-value=9.6e-20  Score=146.25  Aligned_cols=162  Identities=15%  Similarity=0.209  Sum_probs=103.4

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC------CCcc-----------------c---eeEE-----------
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS------KATI-----------------G---VEFQ-----------   54 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~------~~~~-----------------~---~~~~-----------   54 (222)
                      +....++|+|+|.++||||||+++|++..+.+..      .|+.                 +   ++..           
T Consensus        22 ~~~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~  101 (299)
T 2aka_B           22 ADLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETD  101 (299)
T ss_dssp             TTCCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHH
Confidence            3455689999999999999999999998764211      1210                 0   0000           


Q ss_pred             ------------EEEEEE-CCeEEEEEEEeCCCcc-------------hhhhhHHHhhcCCCEEE-EEEECCChhhHHHH
Q 040481           55 ------------TQSMEI-DGKEVKAQIWDTAGQE-------------RFRAVTSAYYRGAVGAL-IVYDITRRTTFDSI  107 (222)
Q Consensus        55 ------------~~~~~~-~~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~vi-~v~d~~~~~s~~~~  107 (222)
                                  ...+.+ ......+.+|||||..             .+...+..+++.++.+| +|+|+++..+....
T Consensus       102 ~i~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~  181 (299)
T 2aka_B          102 RVTGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA  181 (299)
T ss_dssp             HHCSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH
T ss_pred             HhcccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHH
Confidence                        000000 0012468899999953             34566777888888776 79999876554333


Q ss_pred             HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH--cC-CeEEEEccCCCCCHHHHHHHHHHH
Q 040481          108 SRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA--EG-LFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       108 ~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~--~~-~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ..++..+.   ..+.|+++|+||+|+.+......+........  .+ .+++++||++|.|++++++.+.+.
T Consensus       182 ~~~~~~~~---~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          182 LKIAKEVD---PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             HHHHHHHC---TTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             HHHHHHhC---CCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            34444443   35689999999999975443222222210001  12 357899999999999999988773

>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=99.78  E-value=3.6e-20  Score=157.09  Aligned_cols=151  Identities=15%  Similarity=0.137  Sum_probs=101.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCc--CCC-----------------------------CCCCccceeEEEEEEEECC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNE--FNP-----------------------------HSKATIGVEFQTQSMEIDG   62 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~~   62 (222)
                      ...++|+++|++++|||||+++|++..  +..                             +....++.+....  .+..
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~--~~~~   82 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALW--KFET   82 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCE--EEEC
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEE--EEec
Confidence            356899999999999999999998641  110                             0001122222222  3334


Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChh---hHH---HHHHHHHHHHhcCCCCCc-EEEEEeCCCCCc
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRT---TFD---SISRWLDELKTHSDTTVA-RMLVGNKCDLES  135 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~  135 (222)
                      ....+.+|||||++.|.......+..+|++|+|+|++++.   +|+   ...+++..+..   .++| +++++||+|+.+
T Consensus        83 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A           83 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGGT
T ss_pred             CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEcccccc
Confidence            4467889999999999988889999999999999999873   221   22222222322   3455 889999999973


Q ss_pred             CCC----CCHHHHHHHHHHcC-----CeEEEEccCCCCCHHHH
Q 040481          136 IRN----VSTEEGKSLAEAEG-----LFFMETSALDSTNVKSA  169 (222)
Q Consensus       136 ~~~----~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~  169 (222)
                      ...    ...+++..++...+     ++++++||++|.|+.++
T Consensus       160 ~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          160 WDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            211    11234455555554     68999999999999765

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.78  E-value=1.4e-18  Score=132.27  Aligned_cols=155  Identities=15%  Similarity=0.163  Sum_probs=97.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----------hhhhHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----------FRAVTS   83 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~   83 (222)
                      ....+|+++|++|||||||+++|.+..+.....++.+.......+.+++   .+.+||+||...          +.....
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  100 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALG  100 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHH
Confidence            3457999999999999999999998764333344444443333333333   367999999742          222333


Q ss_pred             Hhh---cCCCEEEEEEECCChhhHHH--HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHcC--Ce
Q 040481           84 AYY---RGAVGALIVYDITRRTTFDS--ISRWLDELKTHSDTTVARMLVGNKCDLESIRN--VSTEEGKSLAEAEG--LF  154 (222)
Q Consensus        84 ~~~---~~~d~vi~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~--~~  154 (222)
                      .++   ..++++++++|+.++.++..  +..|+.      ..++|+++|+||.|+....+  ...+.+..++...+  +.
T Consensus       101 ~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~------~~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~  174 (210)
T 1pui_A          101 EYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAV------DSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQ  174 (210)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH------HTTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEE
T ss_pred             HHHHhhhcccEEEEEEECCCCCchhHHHHHHHHH------HcCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCc
Confidence            344   57899999999988765432  223332      14578899999999864211  11234445554443  56


Q ss_pred             EEEEccCCCCCHHHHHHHHHHHH
Q 040481          155 FMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       155 ~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      ++++||+++.|++++++.|.+.+
T Consensus       175 ~~~~Sal~~~~~~~l~~~l~~~~  197 (210)
T 1pui_A          175 VETFSSLKKQGVDKLRQKLDTWF  197 (210)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHH
T ss_pred             eEEEeecCCCCHHHHHHHHHHHH
Confidence            88999999999999999887654

>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=99.77  E-value=7.5e-19  Score=159.83  Aligned_cols=160  Identities=16%  Similarity=0.119  Sum_probs=106.3

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCc-------CCC-------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNE-------FNP-------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      .....++|+++|++++|||||+++|++..       +..       ....+.++++....+.++.....+.+|||||++.
T Consensus       292 ~~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHed  371 (1289)
T 3avx_A          292 RTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHAD  371 (1289)
T ss_dssp             CCCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHH
T ss_pred             ccCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHH
Confidence            34556899999999999999999998741       000       0112233333333344444556788999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcC-
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNV---STEEGKSLAEAEG-  152 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~-  152 (222)
                      |.......+..+|++|+|||++++...+ ..+++..+..   .++| +|+++||+|+.+....   ..+++..++...+ 
T Consensus       372 F~~~mi~gas~AD~aILVVDAtdGv~~Q-TrEhL~ll~~---lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~  447 (1289)
T 3avx_A          372 YVKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLGRQ---VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDF  447 (1289)
T ss_dssp             HHHHHHHTSCCCSEEEEEEETTTCSCTT-HHHHHHHHHH---HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHhhCCEEEEEEcCCccCcHH-HHHHHHHHHH---cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccc
Confidence            9888888999999999999999874322 2344444443   3467 7889999999752211   1234555666654 


Q ss_pred             ----CeEEEEccCCC--------CCHHHHHHHHHH
Q 040481          153 ----LFFMETSALDS--------TNVKSAFEIVIR  175 (222)
Q Consensus       153 ----~~~~~~sa~~~--------~~i~~~~~~i~~  175 (222)
                          ++++++||++|        .|+.++++.|..
T Consensus       448 ~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~  482 (1289)
T 3avx_A          448 PGDDTPIVRGSALKALEGDAEWEAKILELAGFLDS  482 (1289)
T ss_dssp             CTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHH
T ss_pred             cccceeEEEEEeccCCCCCccccccchhhHhHHhh
Confidence                68999999999        346666665544

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.76  E-value=1.4e-17  Score=131.49  Aligned_cols=124  Identities=15%  Similarity=0.149  Sum_probs=84.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR------   87 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~------   87 (222)
                      ..++|+++|++|+|||||+++|++...... ..+..+.......+..++  ..+.+|||||+..+......+++      
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~l  112 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGFL  112 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHHH
Confidence            568999999999999999999999875322 223333344444455555  46789999998776544333332      


Q ss_pred             ---CCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCC--CcEEEEEeCCCCCcCCCCCH
Q 040481           88 ---GAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTT--VARMLVGNKCDLESIRNVST  141 (222)
Q Consensus        88 ---~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~--~p~iiv~nK~Dl~~~~~~~~  141 (222)
                         .+|++|+|++++... +... ..|+..+.......  .|+++|+||+|+.+.+....
T Consensus       113 ~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~  171 (262)
T 3def_A          113 VNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSY  171 (262)
T ss_dssp             TTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCH
T ss_pred             hcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccH
Confidence               789999999997654 3333 46676666544332  48999999999965444433

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.75  E-value=1.2e-17  Score=147.92  Aligned_cols=165  Identities=16%  Similarity=0.183  Sum_probs=109.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEE-------EE---------------------------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQ-------SM---------------------------   58 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~-------~~---------------------------   58 (222)
                      ...++|+|+|.+++|||||+|+|++....+. ..|++.......       .+                           
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            3568999999999999999999998875443 223321000000       11                           


Q ss_pred             -------------------EECCeE--EEEEEEeCCCcch---hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHH
Q 040481           59 -------------------EIDGKE--VKAQIWDTAGQER---FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDEL  114 (222)
Q Consensus        59 -------------------~~~~~~--~~~~i~D~~G~~~---~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i  114 (222)
                                         .++...  ..+.+|||||...   ....+..+++.+|++|+|+|++++.+......|...+
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l  226 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYI  226 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHT
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHH
Confidence                               111100  2478999999655   3345667889999999999999988877766665544


Q ss_pred             HhcCCCCCcEEEEEeCCCCCcCCCCCHH----------HHHH-----HHHH--------cCCeEEEEccC----------
Q 040481          115 KTHSDTTVARMLVGNKCDLESIRNVSTE----------EGKS-----LAEA--------EGLFFMETSAL----------  161 (222)
Q Consensus       115 ~~~~~~~~p~iiv~nK~Dl~~~~~~~~~----------~~~~-----~~~~--------~~~~~~~~sa~----------  161 (222)
                      ..   .+.|+++|+||+|+.....+..+          ....     +...        ...+++++||+          
T Consensus       227 ~~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~  303 (695)
T 2j69_A          227 KG---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNP  303 (695)
T ss_dssp             TT---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCT
T ss_pred             Hh---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCc
Confidence            32   35689999999998654322111          1111     1111        12468999999          


Q ss_pred             ----CCCCHHHHHHHHHHHHHHHh
Q 040481          162 ----DSTNVKSAFEIVIREIYSNV  181 (222)
Q Consensus       162 ----~~~~i~~~~~~i~~~~~~~~  181 (222)
                          ++.|+++++..+.+.+...+
T Consensus       304 ~~~~~~~Gi~~L~~~L~~~l~~~~  327 (695)
T 2j69_A          304 QADLDGTGFPKFMDSLNTFLTRER  327 (695)
T ss_dssp             TCCCTTSSHHHHHHHHHHHHHHTH
T ss_pred             hhhhhccCHHHHHHHHHHHHHHhH
Confidence                99999999999888765543

>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=99.75  E-value=5.5e-18  Score=149.53  Aligned_cols=117  Identities=15%  Similarity=0.145  Sum_probs=81.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCC----------------ccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA----------------TIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      ....+|+|+|+.|+|||||+++|++.........                ..++.+......+....+.+++|||||+..
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~   86 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGD   86 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGG
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccc
Confidence            4457999999999999999999985332110000                012222222223333346788999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      +...+..+++.+|++++|+|+.++..... ..++..+..   .++|+++++||+|+.
T Consensus        87 f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           87 FVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             GHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             hHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEecCCchh
Confidence            98888899999999999999987755333 344444443   357999999999986

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.75  E-value=8.8e-18  Score=140.13  Aligned_cols=160  Identities=17%  Similarity=0.133  Sum_probs=110.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch----hhhh---HHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER----FRAV---TSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~---~~~~~~~~d   90 (222)
                      .|+|+|++|||||||+++|++........+.++.......+..++ ...+.+||+||...    +..+   ....+..++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            478999999999999999988643211122222233334444443 24577999999632    1111   222356799


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSD--TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      .+++++|++ ...+..+..|...+.....  ...|.++|+||.|+...  ...+.........++.++.+||+++.|+++
T Consensus       238 ~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~e  314 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPA  314 (416)
T ss_dssp             EEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHH
Confidence            999999998 5567777777766655432  34689999999998753  222334445555678999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 040481          169 AFEIVIREIYSNV  181 (222)
Q Consensus       169 ~~~~i~~~~~~~~  181 (222)
                      ++++|.+.+.+..
T Consensus       315 L~~~i~~~l~~~~  327 (416)
T 1udx_A          315 LKEALHALVRSTP  327 (416)
T ss_dssp             HHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999886543

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.74  E-value=4.6e-20  Score=160.64  Aligned_cols=150  Identities=21%  Similarity=0.220  Sum_probs=81.2

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCC-------------------------------CCCCCccceeEEEEEEEEC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFN-------------------------------PHSKATIGVEFQTQSMEID   61 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   61 (222)
                      ....++|+++|++++|||||+++|+.....                               .+..+  ++++......+.
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~--GiTid~~~~~~~  251 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERAR--GVTMDVASTTFE  251 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcC--CeeEEeeEEEEE
Confidence            456689999999999999999999642110                               01112  333333333344


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChh---hH---HHHHHHHHHHHhcCCCCCc-EEEEEeCCCCC
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRT---TF---DSISRWLDELKTHSDTTVA-RMLVGNKCDLE  134 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~  134 (222)
                      .....+.||||||+..|.......+..+|++|+|+|++++.   .+   ......+..+..   .++| +|+|+||+|+.
T Consensus       252 ~~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~---lgip~iIvviNKiDl~  328 (592)
T 3mca_A          252 SDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA---LGISEIVVSVNKLDLM  328 (592)
T ss_dssp             -------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH---SSCCCEEEEEECGGGG
T ss_pred             eCCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH---cCCCeEEEEEeccccc
Confidence            44577889999999999888888889999999999998642   01   011222222222   3355 88899999997


Q ss_pred             cCCCCCH----HHHHHHH-HHcC-----CeEEEEccCCCCCHH
Q 040481          135 SIRNVST----EEGKSLA-EAEG-----LFFMETSALDSTNVK  167 (222)
Q Consensus       135 ~~~~~~~----~~~~~~~-~~~~-----~~~~~~sa~~~~~i~  167 (222)
                      +......    .++..+. ...+     ++++++||++|.|+.
T Consensus       329 ~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          329 SWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             cccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            5222111    2233333 3334     379999999999998

>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=99.74  E-value=2.4e-18  Score=141.77  Aligned_cols=156  Identities=14%  Similarity=0.165  Sum_probs=104.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccc---eeEEEE-----------------------------------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIG---VEFQTQ-----------------------------------   56 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~---~~~~~~-----------------------------------   56 (222)
                      ..++|+|+|++|||||||+++|.+..+.+......+   +.....                                   
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            345999999999999999999999776333221111   000000                                   


Q ss_pred             --------------EEEE-CCeEEEEEEEeCCCcchh-------------hhhHHHhhcCCCEEEEEEECCChhhHHHHH
Q 040481           57 --------------SMEI-DGKEVKAQIWDTAGQERF-------------RAVTSAYYRGAVGALIVYDITRRTTFDSIS  108 (222)
Q Consensus        57 --------------~~~~-~~~~~~~~i~D~~G~~~~-------------~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~  108 (222)
                                    .+.+ ......+.+||+||...+             ......++..+|++|+|++..+.....  .
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~  190 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--S  190 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--C
T ss_pred             HhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--H
Confidence                          0000 011234789999997665             566778899999999999875433211  3


Q ss_pred             HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481          109 RWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus       109 ~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      .|+..+......+.|+++|+||+|+.+......+....+...++.+|+++++..+.++++.+..
T Consensus       191 ~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~  254 (360)
T 3t34_A          191 DAIKISREVDPSGDRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDM  254 (360)
T ss_dssp             HHHHHHHHSCTTCTTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCH
T ss_pred             HHHHHHHHhcccCCCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCH
Confidence            4566666666677899999999999765554444444445556788999999988877766544

>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=99.73  E-value=2.8e-17  Score=141.35  Aligned_cols=118  Identities=16%  Similarity=0.153  Sum_probs=78.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC--------------------CCCccceeEEEEEEEECCeEEEEEEEeCC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH--------------------SKATIGVEFQTQSMEIDGKEVKAQIWDTA   73 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   73 (222)
                      ....+|+++|++++|||||+++|+.......                    .....+.++......+....+.+.+||||
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTP   90 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTP   90 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECC
Confidence            4568999999999999999999986321100                    00111111111112222234678899999


Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |+..|...+..++..+|++|+|+|++++.... ...++..+   ...++|+++++||+|+..
T Consensus        91 G~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~~---~~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           91 GHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEVT---RLRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHHH---TTTTCCEEEEEECTTSCC
T ss_pred             CChhHHHHHHHHHHHCCEEEEEEeCCccchHH-HHHHHHHH---HHcCCCEEEEEcCcCCcc
Confidence            99999888888999999999999998875322 12222322   235689999999999864

>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=99.73  E-value=2.9e-17  Score=145.41  Aligned_cols=118  Identities=20%  Similarity=0.218  Sum_probs=84.0

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCC--------C----------CCCCccceeEEEEEEEECCeEEEEEEEeCC
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFN--------P----------HSKATIGVEFQTQSMEIDGKEVKAQIWDTA   73 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~--------~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   73 (222)
                      +.....+|+|+|++++|||||+++|+.....        .          +....++.......+.+.  .+.+.+||||
T Consensus         8 ~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~--~~~i~liDTP   85 (691)
T 1dar_A            8 DLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWK--DHRINIIDTP   85 (691)
T ss_dssp             CGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEET--TEEEEEECCC
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEEC--CeEEEEEECc
Confidence            4566789999999999999999999842110        0          001111122222233333  4678899999


Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |+..+...+..+++.+|++|+|+|++++.++.....|... ..   .++|+++|+||+|+..
T Consensus        86 G~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~-~~---~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           86 GHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQA-EK---YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             SSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHH-HH---TTCCEEEEEECTTSTT
T ss_pred             CccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHH-HH---cCCCEEEEEECCCccc
Confidence            9999988889999999999999999998887766666543 22   3579999999999864

>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=99.72  E-value=3.8e-17  Score=132.08  Aligned_cols=111  Identities=14%  Similarity=0.087  Sum_probs=68.4

Q ss_pred             EEEEEEeCCCcch-------------hhhhHHHhhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040481           65 VKAQIWDTAGQER-------------FRAVTSAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNK  130 (222)
Q Consensus        65 ~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK  130 (222)
                      ..+.+|||||...             +...+..++..+|++|+|+|..+.. .......+...+   ...+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~---~~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV---DPEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH---CSSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHh---CCCCCcEEEEEcC
Confidence            4588999999643             4556777889999999999974332 111111223333   2356899999999


Q ss_pred             CCCCcCCCCCHHHHHHHHHHcCCeEEEEccCC------CCCHHHHHHHHHHHHH
Q 040481          131 CDLESIRNVSTEEGKSLAEAEGLFFMETSALD------STNVKSAFEIVIREIY  178 (222)
Q Consensus       131 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~------~~~i~~~~~~i~~~~~  178 (222)
                      +|+.+......+.+.......+..++++++..      +.|+.+++..+...+.
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~  261 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFK  261 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHh
Confidence            99975443222222211111225666666554      6888998887766554

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.72  E-value=2e-18  Score=138.83  Aligned_cols=164  Identities=15%  Similarity=0.279  Sum_probs=86.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcC-cCCCCCCC------ccceeEEEEEEEE--CCeEEEEEEEeCCCc-------c
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARN-EFNPHSKA------TIGVEFQTQSMEI--DGKEVKAQIWDTAGQ-------E   76 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~-~~~~~~~~------~~~~~~~~~~~~~--~~~~~~~~i~D~~G~-------~   76 (222)
                      ....++|+|+|++|+|||||+++|.+. .++....+      +.+.......+.+  .+....+.+||++|.       +
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e   94 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD   94 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC----------
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHH
Confidence            345589999999999999999999875 33322211      1111111112222  334567899999997       4


Q ss_pred             hhhhhHH-------HhhcC-------------CCEEEEEEECCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           77 RFRAVTS-------AYYRG-------------AVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        77 ~~~~~~~-------~~~~~-------------~d~vi~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .+.....       .++..             +++++|+.+.+.. +|+.+. .++..+   . ...|+++|+||.|+..
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~~~~l~~l---~-~~~~iilV~~K~Dl~~  169 (301)
T 2qnr_A           95 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLDVAFMKAI---H-NKVNIVPVIAKADTLT  169 (301)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHHHHHHHHH---T-TTSCEEEEECCGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHHHHHHHHH---H-hcCCEEEEEEeCCCCC
Confidence            4444333       33322             3445565554321 233332 233322   2 3578999999999975


Q ss_pred             CCCC--CHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHHHhh
Q 040481          136 IRNV--STEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       136 ~~~~--~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      ..++  ..+++.+++...+++++++||+++ +++++|..+.+.+.+..+
T Consensus       170 ~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p  217 (301)
T 2qnr_A          170 LKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIP  217 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCC
Confidence            4332  235677888889999999999999 999999999988765443

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.72  E-value=3e-17  Score=130.06  Aligned_cols=123  Identities=12%  Similarity=0.091  Sum_probs=80.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhH-------HHh-
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVT-------SAY-   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-------~~~-   85 (222)
                      ..++|+++|.+|+|||||+++|++..+... ..+..+.......+...  .+.+.+|||||...+....       ..+ 
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~  115 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRA--GFTLNIIDTPGLIEGGYINDMALNIIKSFL  115 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEET--TEEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeC--CeEEEEEECCCCCCCccchHHHHHHHHHHh
Confidence            468999999999999999999998775322 22222222222233333  4568899999986653221       111 


Q ss_pred             -hcCCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCC--CcEEEEEeCCCCCcCCCCC
Q 040481           86 -YRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTT--VARMLVGNKCDLESIRNVS  140 (222)
Q Consensus        86 -~~~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~--~p~iiv~nK~Dl~~~~~~~  140 (222)
                       ...+|++|+|+|++.. ++... ..|+..+.......  .|+++|+||+|+...+...
T Consensus       116 ~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~  173 (270)
T 1h65_A          116 LDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLP  173 (270)
T ss_dssp             TTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCC
T ss_pred             hcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCC
Confidence             2468999999999653 23333 46777765543322  6999999999997544333

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.71  E-value=5.6e-18  Score=136.30  Aligned_cols=134  Identities=16%  Similarity=0.155  Sum_probs=108.5

Q ss_pred             HHHHHHhcCcCC-CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChh-hHHHHH
Q 040481           31 NLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRT-TFDSIS  108 (222)
Q Consensus        31 tli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~  108 (222)
                      +|+.++..+.+. ..+.||++..+. ..+..++   .+.+||+  ++.+..+++.+++++|++|+|||++++. ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688888888887 778899885444 3322222   5789999  8889999999999999999999999998 788899


Q ss_pred             HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEEccCCCCCHHHHHHHHHH
Q 040481          109 RWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG--LFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       109 ~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      .|+..+..   .++|+++|+||+|+.+.+.+  ++..+++..++  ++++++||++|.|++++|..+..
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            99988765   46899999999999754332  44666777777  89999999999999999987654

>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=99.69  E-value=8.7e-16  Score=136.21  Aligned_cols=120  Identities=19%  Similarity=0.119  Sum_probs=83.7

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCc--CCCC-----------C-----CCccceeEEEEEEEEC-----CeEEEEE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNE--FNPH-----------S-----KATIGVEFQTQSMEID-----GKEVKAQ   68 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~--~~~~-----------~-----~~~~~~~~~~~~~~~~-----~~~~~~~   68 (222)
                      +.....+|+|+|+.++|||||+++|+...  +...           +     ...++.......+.+.     +..+.++
T Consensus         6 ~~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~   85 (704)
T 2rdo_7            6 PIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRIN   85 (704)
T ss_pred             CcccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEE
Confidence            34566899999999999999999997531  1100           0     0111222222223222     2347899


Q ss_pred             EEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           69 IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        69 i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      ||||||+..|...+...++.+|++|+|+|++++........|.. +.   ..++|+++++||+|+..
T Consensus        86 liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~---~~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           86 IIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-AN---KYKVPRIAFVNKMDRMG  148 (704)
T ss_pred             EEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HH---HcCCCEEEEEeCCCccc
Confidence            99999999998888899999999999999998866555444433 22   24589999999999853

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.69  E-value=1.3e-17  Score=138.68  Aligned_cols=85  Identities=21%  Similarity=0.219  Sum_probs=47.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEE--E-------------------EECC-eEEEEEEEeCCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQS--M-------------------EIDG-KEVKAQIWDTAG   74 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~--~-------------------~~~~-~~~~~~i~D~~G   74 (222)
                      ++|+++|.++||||||+|+|++........|.++.+.....  +                   .+++ ..+.+.+|||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            48999999999999999999987732222232222211111  1                   1122 257799999999


Q ss_pred             cch----hhhhHH---HhhcCCCEEEEEEECCCh
Q 040481           75 QER----FRAVTS---AYYRGAVGALIVYDITRR  101 (222)
Q Consensus        75 ~~~----~~~~~~---~~~~~~d~vi~v~d~~~~  101 (222)
                      ...    ...+..   ..++.+|++++|+|+.+.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            753    222222   346899999999999875

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.69  E-value=2.8e-17  Score=137.18  Aligned_cols=158  Identities=15%  Similarity=0.199  Sum_probs=82.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-C-------CCccceeEEEEEEEE--CCeEEEEEEEeCCCcchhh--
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-S-------KATIGVEFQTQSMEI--DGKEVKAQIWDTAGQERFR--   79 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~-------~~~~~~~~~~~~~~~--~~~~~~~~i~D~~G~~~~~--   79 (222)
                      -....++|+|+|++|+|||||+++|.+...... +       .++..  .....+.+  .+....+.+||++|.....  
T Consensus        27 l~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~--~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~  104 (418)
T 2qag_C           27 KRGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQ--VEQSKVLIKEGGVQLLLTIVDTPGFGDAVDN  104 (418)
T ss_dssp             C-CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCE--EEEEECC------CEEEEEEECC--------
T ss_pred             ecCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCcccee--eeeEEEEEecCCcccceeeeechhhhhhccc
Confidence            344557899999999999999999998765321 1       11111  11112112  2333578899999975431  


Q ss_pred             -----hh------------------HHHhhcCCCEEEEEEECCCh-hhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           80 -----AV------------------TSAYYRGAVGALIVYDITRR-TTFDSIS-RWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        80 -----~~------------------~~~~~~~~d~vi~v~d~~~~-~s~~~~~-~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                           .+                  ...++..+++.+++|..... .+++.+. .|+..+.    .++|+|+|+||+|+.
T Consensus       105 ~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll  180 (418)
T 2qag_C          105 SNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTL  180 (418)
T ss_dssp             ---CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSS
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCc
Confidence                 11                  12234444444444444332 2344443 5666664    258999999999987


Q ss_pred             cCCCCCH--HHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481          135 SIRNVST--EEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       135 ~~~~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ....+..  +.+.+++...+++++++|++++.++.++|..+..
T Consensus       181 ~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~  223 (418)
T 2qag_C          181 TPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKD  223 (418)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCCCCCC----------------
T ss_pred             cHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHh
Confidence            5444443  5667778888999999999999999987766654

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.69  E-value=2.5e-16  Score=139.47  Aligned_cols=118  Identities=20%  Similarity=0.195  Sum_probs=83.5

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcC--cCCC-----------CC-----CCccceeEEEEEEEECCeEEEEEEEeCC
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARN--EFNP-----------HS-----KATIGVEFQTQSMEIDGKEVKAQIWDTA   73 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~--~~~~-----------~~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~   73 (222)
                      +.....+|+|+|++++|||||+++|+..  .+..           .+     .+.++.......+.+.  .+.+.+||||
T Consensus         6 ~~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~--~~~i~liDTP   83 (693)
T 2xex_A            6 SLEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWE--GHRVNIIDTP   83 (693)
T ss_dssp             CSTTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEET--TEEEEEECCC
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEEC--CeeEEEEECc
Confidence            3456789999999999999999999852  2110           00     0111111222233333  3668899999


Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |+..+...+..+++.+|++|+|+|++++.+......|.. +..   .++|+++|+||+|+..
T Consensus        84 G~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           84 GHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             CCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             CCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            999998888899999999999999999877766655543 333   3579999999999864

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.64  E-value=5.2e-15  Score=121.01  Aligned_cols=145  Identities=20%  Similarity=0.136  Sum_probs=90.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe---------------EEEEEEEeCCCcchhh--
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK---------------EVKAQIWDTAGQERFR--   79 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~--   79 (222)
                      ++|+++|.+|||||||+++|++........|.++.+.....+.+++.               ...+.+||+||.....  
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~   82 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccccc
Confidence            68999999999999999999987643332332222222223334432               1468899999976542  


Q ss_pred             -----hhHHHhhcCCCEEEEEEECCCh----------hhHHHHHHHHHH-------------------------------
Q 040481           80 -----AVTSAYYRGAVGALIVYDITRR----------TTFDSISRWLDE-------------------------------  113 (222)
Q Consensus        80 -----~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~-------------------------------  113 (222)
                           ......++.+|++++|+|+.+.          .++..+..+..+                               
T Consensus        83 ~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~~  162 (363)
T 1jal_A           83 GEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFEL  162 (363)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHHH
Confidence                 1233457999999999999762          223332221111                               


Q ss_pred             ---------HHh-------------------c-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccC
Q 040481          114 ---------LKT-------------------H-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSAL  161 (222)
Q Consensus       114 ---------i~~-------------------~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  161 (222)
                               +..                   . .....|+++++|+.|.......-.+.+++++...+++++++||+
T Consensus       163 ~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~  239 (363)
T 1jal_A          163 SVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAA  239 (363)
T ss_dssp             HHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHH
T ss_pred             HHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechH
Confidence                     111                   0 11248999999999864211223456677888889999999965

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.63  E-value=3e-16  Score=120.42  Aligned_cols=155  Identities=13%  Similarity=0.115  Sum_probs=94.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC------CCccce--------eEEEEEEEE----------------CCeE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHS------KATIGV--------EFQTQSMEI----------------DGKE   64 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~------~~~~~~--------~~~~~~~~~----------------~~~~   64 (222)
                      ...+|+++|.+|||||||+++|.........      .+..+.        ......+..                ....
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSD  108 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCC
Confidence            4578999999999999999999875321111      110000        001111110                0112


Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEG  144 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~  144 (222)
                      +.+.+|||+|......   .+....+.+|+|+|+.+...  ....+...      .+.|+++|+||+|+.+......+..
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~--~~~~~~~~------~~~~~iiv~NK~Dl~~~~~~~~~~~  177 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDD--VVEKHPEI------FRVADLIVINKVALAEAVGADVEKM  177 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTT--HHHHCHHH------HHTCSEEEEECGGGHHHHTCCHHHH
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcch--hhhhhhhh------hhcCCEEEEecccCCcchhhHHHHH
Confidence            4577999998511100   11135688999999977643  11111111      1368899999999865333455566


Q ss_pred             HHHHHHc--CCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          145 KSLAEAE--GLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       145 ~~~~~~~--~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      ..++...  +++++++||++|.|++++|+++.+.+...
T Consensus       178 ~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          178 KADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            6566554  47899999999999999999998876543

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.62  E-value=8.1e-17  Score=132.32  Aligned_cols=159  Identities=16%  Similarity=0.143  Sum_probs=94.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC------CCccc--------------------ee---------------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS------KATIG--------------------VE---------------   52 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~------~~~~~--------------------~~---------------   52 (222)
                      ...++|+|+|.++||||||+++|++..+.+..      .|+..                    ++               
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            34579999999999999999999998763221      12100                    00               


Q ss_pred             --------EEEEEEEEC-CeEEEEEEEeCCCcc-------------hhhhhHHHhhcCCC-EEEEEEECCChhhHHHHHH
Q 040481           53 --------FQTQSMEID-GKEVKAQIWDTAGQE-------------RFRAVTSAYYRGAV-GALIVYDITRRTTFDSISR  109 (222)
Q Consensus        53 --------~~~~~~~~~-~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d-~vi~v~d~~~~~s~~~~~~  109 (222)
                              .....+.+. .....+.+|||||..             .+..+...++...+ ++++|++++....-.   .
T Consensus       109 ~g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~---~  185 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANS---D  185 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGC---H
T ss_pred             cccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchh---H
Confidence                    000001111 113468899999953             34456666776665 455566765532211   1


Q ss_pred             HHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH--HHHHcC-CeEEEEccCCCCCHHHHHHHHHH
Q 040481          110 WLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKS--LAEAEG-LFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       110 ~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~--~~~~~~-~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |...+......+.|+++|+||.|+.+......+....  +....+ .+++++||+++.|++++++.+..
T Consensus       186 ~~~i~~~~~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          186 ALKVAKEVDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHHHHCTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHhCcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            2233333444678999999999997543322221110  000112 34788999999999999988766

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.60  E-value=1.5e-17  Score=128.15  Aligned_cols=154  Identities=15%  Similarity=0.149  Sum_probs=90.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEE------------EEEEEEC-Ce------------------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQ------------TQSMEID-GK------------------   63 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~------------~~~~~~~-~~------------------   63 (222)
                      ..++|+++|++|||||||+++|....+...+.++.+.++.            ...+.++ +.                  
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~  116 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNL  116 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhc
Confidence            3589999999999999999999887654433333332221            1111111 10                  


Q ss_pred             -EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040481           64 -EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTE  142 (222)
Q Consensus        64 -~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~  142 (222)
                       ...+.++|++|.-...   ..+-...+.++.++++.......  ......      ...|.++|+||+|+.+......+
T Consensus       117 ~~~d~~~id~~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~--~~~~~~------~~~~~iiv~NK~Dl~~~~~~~~~  185 (226)
T 2hf9_A          117 DEIDLLFIENVGNLICP---ADFDLGTHKRIVVISTTEGDDTI--EKHPGI------MKTADLIVINKIDLADAVGADIK  185 (226)
T ss_dssp             GGCSEEEEECCSCSSGG---GGCCCSCSEEEEEEEGGGCTTTT--TTCHHH------HTTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCCCEEEEeCCCCccCc---chhhhccCcEEEEEecCcchhhH--hhhhhH------hhcCCEEEEeccccCchhHHHHH
Confidence             0134456665521110   01111234455666643221100  000111      12577999999999754445566


Q ss_pred             HHHHHHHHc--CCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          143 EGKSLAEAE--GLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       143 ~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      +...++...  +++++++||++|.|++++|+++.+.+..
T Consensus       186 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          186 KMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             HHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            666666654  6789999999999999999999887653

>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=99.60  E-value=5.2e-16  Score=127.60  Aligned_cols=103  Identities=16%  Similarity=0.123  Sum_probs=69.5

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEG  144 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~  144 (222)
                      +.+.||||||....   ....+..+|++|+|+|......+..+..        .-...|+++|+||+|+....... ...
T Consensus       172 ~~~iiiDTpGi~~~---~~~~~~~aD~vl~V~d~~~~~~~~~l~~--------~~~~~p~ivVlNK~Dl~~~~~~~-~~~  239 (355)
T 3p32_A          172 FDVILIETVGVGQS---EVAVANMVDTFVLLTLARTGDQLQGIKK--------GVLELADIVVVNKADGEHHKEAR-LAA  239 (355)
T ss_dssp             CCEEEEEECSCSSH---HHHHHTTCSEEEEEEESSTTCTTTTCCT--------TSGGGCSEEEEECCCGGGHHHHH-HHH
T ss_pred             CCEEEEeCCCCCcH---HHHHHHhCCEEEEEECCCCCccHHHHHH--------hHhhcCCEEEEECCCCcChhHHH-HHH
Confidence            56789999995432   2334588999999999877654322111        11235889999999986422211 111


Q ss_pred             HHHHHH----------cCCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          145 KSLAEA----------EGLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       145 ~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      .++...          ++.+++++||++|.|+++++++|.+.+..
T Consensus       240 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          240 RELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            222221          25789999999999999999999887654

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.57  E-value=1e-14  Score=125.93  Aligned_cols=114  Identities=18%  Similarity=0.138  Sum_probs=79.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcC----------------------CCCCCCccceeEEEEEEEECCeEEEEEEEeC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEF----------------------NPHSKATIGVEFQTQSMEIDGKEVKAQIWDT   72 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   72 (222)
                      +.-+|+|+|+.++|||||..+|+....                      ..+....+++.-....+.+.  ++.++|+||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~--~~~iNlIDT  107 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYR--DRVVNLLDT  107 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEET--TEEEEEECC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEEC--CEEEEEEeC
Confidence            446899999999999999999963111                      01111112222223333344  467889999


Q ss_pred             CCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           73 AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        73 ~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ||+..|..-....++-+|++|+|+|+.++-.-.....|.. +..   .++|+++++||+|..
T Consensus       108 PGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~-a~~---~~lp~i~fINK~Dr~  165 (548)
T 3vqt_A          108 PGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDV-CRM---RATPVMTFVNKMDRE  165 (548)
T ss_dssp             CCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSC
T ss_pred             CCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHH-HHH---hCCceEEEEecccch
Confidence            9999999988899999999999999998865444344433 333   457999999999974

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.55  E-value=4.1e-14  Score=116.30  Aligned_cols=154  Identities=16%  Similarity=0.096  Sum_probs=92.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC-------------------eEEEEEEEeCCCcch
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG-------------------KEVKAQIWDTAGQER   77 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~i~D~~G~~~   77 (222)
                      ++|+++|.+|+|||||+++|++........+..+.+.......+.+                   ....+.+||+||...
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            5799999999999999999988653222222212211111222221                   234688999999755


Q ss_pred             hh-------hhHHHhhcCCCEEEEEEECCCh----------hhHHHHHHHHH----------------------------
Q 040481           78 FR-------AVTSAYYRGAVGALIVYDITRR----------TTFDSISRWLD----------------------------  112 (222)
Q Consensus        78 ~~-------~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~----------------------------  112 (222)
                      ..       ......++.+|++++|+|+.+.          ..+..+..+..                            
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~~~~~~~~~~~~~~~~  161 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERRLERLRKEARADRERL  161 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGH
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHHHHHHHhhhccchhHH
Confidence            32       2234468999999999999752          11221111100                            


Q ss_pred             -----------HHHhcC--------------------CCCCcEEEEEeCCCCC--cC-CCCCHHHHHHHHHHcCCeEEEE
Q 040481          113 -----------ELKTHS--------------------DTTVARMLVGNKCDLE--SI-RNVSTEEGKSLAEAEGLFFMET  158 (222)
Q Consensus       113 -----------~i~~~~--------------------~~~~p~iiv~nK~Dl~--~~-~~~~~~~~~~~~~~~~~~~~~~  158 (222)
                                 .+....                    -...|+++++||.|..  +. .....+.+++++...+++++++
T Consensus       162 ~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~i  241 (368)
T 2dby_A          162 PLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVV  241 (368)
T ss_dssp             HHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEE
T ss_pred             HHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEe
Confidence                       010100                    1237999999999842  21 1233456777888889999999


Q ss_pred             ccCCCCCHHHHH
Q 040481          159 SALDSTNVKSAF  170 (222)
Q Consensus       159 sa~~~~~i~~~~  170 (222)
                      ||+...++.++.
T Consensus       242 SAk~E~el~eL~  253 (368)
T 2dby_A          242 SARLEAELAELS  253 (368)
T ss_dssp             CHHHHHHHHTSC
T ss_pred             echhHHHHHHhc
Confidence            998765555543

>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=99.55  E-value=1.8e-14  Score=130.15  Aligned_cols=118  Identities=21%  Similarity=0.212  Sum_probs=85.8

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCC----------------CCCC--ccceeEEEEEEE------------ECC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNP----------------HSKA--TIGVEFQTQSME------------IDG   62 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~----------------~~~~--~~~~~~~~~~~~------------~~~   62 (222)
                      .....+|+|+|+.++|||||+++|+......                +...  ++........+.            .++
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~   95 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   95 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccC
Confidence            3456899999999999999999998642100                0111  111111111121            234


Q ss_pred             eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           63 KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        63 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ..+.+++|||||+..|...+..+++.+|++|+|||++++.++.....|.....    .++|+++++||+|+.
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEECCCcc
Confidence            47889999999999999999999999999999999999988777666654432    357999999999986

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.54  E-value=8.1e-15  Score=126.65  Aligned_cols=122  Identities=16%  Similarity=0.172  Sum_probs=82.1

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCC---CCCCCccceeEEEEE----------------------EE-------
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFN---PHSKATIGVEFQTQS----------------------ME-------   59 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~----------------------~~-------   59 (222)
                      .....++|+|+|.+|+|||||+|+|++..+.   ....+++.....+..                      +.       
T Consensus        61 ~~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~  140 (550)
T 2qpt_A           61 DFDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFL  140 (550)
T ss_dssp             TTSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCC
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhccccc
Confidence            3456689999999999999999999998763   222233211110000                      00       


Q ss_pred             -------ECCe-EEEEEEEeCCCcch-----------hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCC
Q 040481           60 -------IDGK-EVKAQIWDTAGQER-----------FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT  120 (222)
Q Consensus        60 -------~~~~-~~~~~i~D~~G~~~-----------~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~  120 (222)
                             +.+. ...+.||||||...           +...+..++..+|++|+|+|+++....+....|+..+..   .
T Consensus       141 ~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~  217 (550)
T 2qpt_A          141 NRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---H  217 (550)
T ss_dssp             TTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---C
T ss_pred             ccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---c
Confidence                   0000 02478999999764           446667788999999999999885444555566655543   4


Q ss_pred             CCcEEEEEeCCCCCcC
Q 040481          121 TVARMLVGNKCDLESI  136 (222)
Q Consensus       121 ~~p~iiv~nK~Dl~~~  136 (222)
                      ..|+++|+||+|+...
T Consensus       218 ~~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          218 EDKIRVVLNKADMVET  233 (550)
T ss_dssp             GGGEEEEEECGGGSCH
T ss_pred             CCCEEEEEECCCccCH
Confidence            5799999999999753

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.54  E-value=3e-13  Score=111.17  Aligned_cols=155  Identities=15%  Similarity=0.109  Sum_probs=104.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-------hhhHHHh
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-------RAVTSAY   85 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~   85 (222)
                      +....+|+|+|.|+||||||+|+|++........|.++.+.....+.+.+.  .++++|+||....       .......
T Consensus        69 k~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~--~i~l~D~pGl~~~a~~~~~~g~~~l~~  146 (376)
T 4a9a_A           69 RTGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGA--KIQMLDLPGIIDGAKDGRGRGKQVIAV  146 (376)
T ss_dssp             BCSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTE--EEEEEECGGGCCC-----CHHHHHHHH
T ss_pred             ecCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCc--EEEEEeCCCccCCchhhhHHHHHHHHH
Confidence            455679999999999999999999987755555566677777778888774  4679999995321       1223456


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCc--------CCCCCHHHHHHHHHHcCCeE
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHS--DTTVARMLVGNKCDLES--------IRNVSTEEGKSLAEAEGLFF  155 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~iiv~nK~Dl~~--------~~~~~~~~~~~~~~~~~~~~  155 (222)
                      ++.+|++++|+|+.++.  ........++....  -...|.++++||.|...        ......++.+.+...+.+..
T Consensus       147 i~~ad~il~vvD~~~p~--~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~  224 (376)
T 4a9a_A          147 ARTCNLLFIILDVNKPL--HHKQIIEKELEGVGIRLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINS  224 (376)
T ss_dssp             HHHCSEEEEEEETTSHH--HHHHHHHHHHHHTTEEETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCS
T ss_pred             HHhcCccccccccCccH--HHHHHHHHHHHHhhHhhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccC
Confidence            78899999999999874  23333333343322  14467789999999632        23456667776666665543


Q ss_pred             EEEccCCCCCHHHHHH
Q 040481          156 METSALDSTNVKSAFE  171 (222)
Q Consensus       156 ~~~sa~~~~~i~~~~~  171 (222)
                      -++-...+...+++.+
T Consensus       225 kpv~~~~nv~eddl~d  240 (376)
T 4a9a_A          225 AEIAFRCDATVDDLID  240 (376)
T ss_dssp             EEEEECSCCCHHHHHH
T ss_pred             CCeeecccCCHHHHHH
Confidence            3333344555666543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.52  E-value=3.7e-15  Score=122.15  Aligned_cols=102  Identities=11%  Similarity=0.019  Sum_probs=62.0

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEG  144 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~  144 (222)
                      +.+.++||+|....   .......+|++++|+|+..+.....+..   .+     ...|.++|+||+|+.+..... ...
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~~-~~~  234 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPAR-RIQ  234 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHHH-HHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhHH-HHH
Confidence            45789999995422   2334678999999999987643221111   11     235789999999986321110 111


Q ss_pred             HHHHH----------HcCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          145 KSLAE----------AEGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       145 ~~~~~----------~~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ..+..          .++.+++.+||++|.|+++++++|.+.+.
T Consensus       235 ~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          235 AEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             HHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence            22211          22467899999999999999998888653

>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=99.48  E-value=6.2e-14  Score=114.57  Aligned_cols=104  Identities=18%  Similarity=0.090  Sum_probs=65.2

Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST--  141 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~--  141 (222)
                      ++.+.||||||.......   ....+|++++|+|+.....+..+...   .     .+.|.++|+||+|+........  
T Consensus       148 ~~~i~liDTpG~~~~~~~---~~~~aD~vl~Vvd~~~~~~~~~l~~~---~-----~~~p~ivv~NK~Dl~~~~~~~~~~  216 (341)
T 2p67_A          148 GYDVVIVETVGVGQSETE---VARMVDCFISLQIAGGGDDLQGIKKG---L-----MEVADLIVINKDDGDNHTNVAIAR  216 (341)
T ss_dssp             TCSEEEEEEECCTTHHHH---HHTTCSEEEEEECC------CCCCHH---H-----HHHCSEEEECCCCTTCHHHHHHHH
T ss_pred             CCCEEEEeCCCccchHHH---HHHhCCEEEEEEeCCccHHHHHHHHh---h-----hcccCEEEEECCCCCChHHHHHHH
Confidence            356889999997654332   46889999999999765432111110   0     1357899999999864221111  


Q ss_pred             HHHHHHHHHc-------CCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          142 EEGKSLAEAE-------GLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       142 ~~~~~~~~~~-------~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ++........       ..+++++||++|.|++++++.|.+.+.
T Consensus       217 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          217 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            1122211121       457899999999999999999988765

>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=99.46  E-value=5.4e-13  Score=104.77  Aligned_cols=111  Identities=13%  Similarity=-0.035  Sum_probs=66.8

Q ss_pred             EEEEEEeCCCcchhhhhHH------HhhcCCCEEEEEEECCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           65 VKAQIWDTAGQERFRAVTS------AYYRGAVGALIVYDITRRTTFDSISR-WLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~------~~~~~~d~vi~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      +.+.+|||||.........      ..+.. +++++++|+........... +..........+.|+++|+||+|+....
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~~  187 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  187 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEecccccccc
Confidence            4688999999876533211      23455 88888998754332222211 1111111112347999999999986432


Q ss_pred             CCCHHHHHH----------------------------HHHHcC--CeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          138 NVSTEEGKS----------------------------LAEAEG--LFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       138 ~~~~~~~~~----------------------------~~~~~~--~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ..  ++..+                            ++..++  ++++++||+++.|++++++++.+.+.
T Consensus       188 ~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          188 EK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            11  11111                            123333  47999999999999999998887654

>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=99.43  E-value=2e-13  Score=120.83  Aligned_cols=159  Identities=14%  Similarity=0.147  Sum_probs=95.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC-CCccceeEEE-------------------------------------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQT-------------------------------------   55 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~-------------------------------------   55 (222)
                      ...++|+|+|.+++|||||+|+|++..+.+.. .+.+......                                     
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            45579999999999999999999997652211 1111000000                                     


Q ss_pred             -----------EEEEE-CCeEEEEEEEeCCCcch-------------hhhhHHHhh-cCCCEEEEEEECCChhhHHHHHH
Q 040481           56 -----------QSMEI-DGKEVKAQIWDTAGQER-------------FRAVTSAYY-RGAVGALIVYDITRRTTFDSISR  109 (222)
Q Consensus        56 -----------~~~~~-~~~~~~~~i~D~~G~~~-------------~~~~~~~~~-~~~d~vi~v~d~~~~~s~~~~~~  109 (222)
                                 ..+.+ ......+.|+||||...             .......++ ..+|++++|+|++....-.....
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~  208 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  208 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHH
T ss_pred             cCCCCcccccceEEEEecCCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHH
Confidence                       00111 00112467999999433             223334444 57899999999987543222223


Q ss_pred             HHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH--HcC-CeEEEEccCCCCCHHHHHHHHHH
Q 040481          110 WLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE--AEG-LFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       110 ~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~--~~~-~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ++..+   ...+.|+++|+||.|+.+..............  ..+ .+++++||++|.|++++++.+..
T Consensus       209 ll~~L---~~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          209 IAKEV---DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             HHHHH---CTTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHH
T ss_pred             HHHHH---HhcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHH
Confidence            33333   34568999999999997644433221110000  012 35778999999999999887765

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.41  E-value=1.1e-13  Score=121.67  Aligned_cols=114  Identities=18%  Similarity=0.204  Sum_probs=78.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcC--CC----CC-----C-----CccceeEEEEEEEECCeEEEEEEEeCCCcchhhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEF--NP----HS-----K-----ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA   80 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~--~~----~~-----~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   80 (222)
                      .+|+|+|+.++|||||..+|+....  ..    ..     +     ...++++....+.+...++.++++|||||..|..
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~   82 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLA   82 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHH
Confidence            3789999999999999999963211  10    00     0     0012233333333444456788999999999999


Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      .....++-+|++|+|+|+.++-.-.....|.. +..   .++|.++++||+|..
T Consensus        83 Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~-a~~---~~lp~i~~INKmDr~  132 (638)
T 3j25_A           83 EVYRSLSVLDGAILLISAKDGVQAQTRILFHA-LRK---MGIPTIFFINKIDQN  132 (638)
T ss_dssp             HHHHHHTTCSEEECCEESSCTTCSHHHHHHHH-HHH---HTCSCEECCEECCSS
T ss_pred             HHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHH-HHH---cCCCeEEEEeccccc
Confidence            88999999999999999998754333333433 323   346889999999964

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.40  E-value=6.7e-13  Score=108.20  Aligned_cols=104  Identities=13%  Similarity=0.039  Sum_probs=63.3

Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEE  143 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~  143 (222)
                      ++.+.|+||+|......   .....+|.+++++|+..+.....+....        ...|.++++||.|+..........
T Consensus       147 ~~~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~~~~~~i~~~i--------~~~~~ivvlNK~Dl~~~~~~s~~~  215 (337)
T 2qm8_A          147 GFDVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDELQGIKKGI--------FELADMIAVNKADDGDGERRASAA  215 (337)
T ss_dssp             TCCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC------CCTTH--------HHHCSEEEEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCcccHHHHHHHH--------hccccEEEEEchhccCchhHHHHH
Confidence            35678999999754322   2357899999999986553221111111        123557788999975322222222


Q ss_pred             HHHHHHH----------cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          144 GKSLAEA----------EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       144 ~~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ...+...          ++.+++.+||.++.|++++++.|.+.+.
T Consensus       216 ~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          216 ASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            2333221          1467899999999999999998877543

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.40  E-value=9.7e-12  Score=110.64  Aligned_cols=119  Identities=20%  Similarity=0.186  Sum_probs=80.8

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCc--------CCC----------CCCCccceeEEEEEEEECC-----eEEEEE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNE--------FNP----------HSKATIGVEFQTQSMEIDG-----KEVKAQ   68 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~--------~~~----------~~~~~~~~~~~~~~~~~~~-----~~~~~~   68 (222)
                      +.++.-+|+|+|+..+|||||..+|+...        ...          +....+++.-....+.+.+     ..+.++
T Consensus         9 p~~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iN   88 (709)
T 4fn5_A            9 PINRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVN   88 (709)
T ss_dssp             CGGGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEE
T ss_pred             chHHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEE
Confidence            44566799999999999999999996321        100          1111112222222333322     357899


Q ss_pred             EEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           69 IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        69 i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ++|||||..|..-....++-+|++|+|+|+.++-.-....-|.....    .++|.++++||+|..
T Consensus        89 lIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~----~~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           89 VIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANK----YGVPRIVYVNKMDRQ  150 (709)
T ss_dssp             EECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH----HTCCEEEEEECSSST
T ss_pred             EEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHH----cCCCeEEEEcccccc
Confidence            99999999999888899999999999999998765444344444333    347999999999964

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.39  E-value=7.4e-13  Score=106.38  Aligned_cols=97  Identities=16%  Similarity=0.094  Sum_probs=78.5

Q ss_pred             cchhhhhHHHhhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-HHHHHHHHHHcC
Q 040481           75 QERFRAVTSAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS-TEEGKSLAEAEG  152 (222)
Q Consensus        75 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~-~~~~~~~~~~~~  152 (222)
                      ++++..+.+.+++++|++|+|+|++++. ++..+..|+..+..   .++|+++|+||+|+.+...+. .++...++...+
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g  142 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAG  142 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCC
Confidence            4666667777899999999999999986 89988999987765   458999999999997543222 344556677778


Q ss_pred             CeEEEEccCCCCCHHHHHHHHH
Q 040481          153 LFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus       153 ~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ++++++||++|.|+++++..+.
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHhhcc
Confidence            9999999999999999987653

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.31  E-value=4.2e-11  Score=99.06  Aligned_cols=88  Identities=16%  Similarity=0.202  Sum_probs=62.6

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcC-CCCCCCccceeEEEEEEEECCe---------------EEEEEEEeCCCcc
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGK---------------EVKAQIWDTAGQE   76 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~   76 (222)
                      .....+|+++|++|+|||||+|+|++... .....|.++.+.....+.+.+.               ...+.+||+||..
T Consensus        17 v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~   96 (392)
T 1ni3_A           17 PGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLT   96 (392)
T ss_dssp             SSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGC
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccc
Confidence            34457999999999999999999999765 4444455455544555555541               1357899999943


Q ss_pred             h-------hhhhHHHhhcCCCEEEEEEECCC
Q 040481           77 R-------FRAVTSAYYRGAVGALIVYDITR  100 (222)
Q Consensus        77 ~-------~~~~~~~~~~~~d~vi~v~d~~~  100 (222)
                      .       +...+...++.+|++++|+|+.+
T Consensus        97 ~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           97 KGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            2       23345566789999999999864

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.28  E-value=2.8e-12  Score=105.87  Aligned_cols=90  Identities=13%  Similarity=0.112  Sum_probs=53.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe---------------EEEEEEEeCCCcchh
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK---------------EVKAQIWDTAGQERF   78 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~   78 (222)
                      ...++|+++|.+|||||||+++|++........|+++.+.....+.+.+.               ...+.+||+||....
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            44579999999999999999999988764444455555544555555432               234889999997654


Q ss_pred             hh-------hHHHhhcCCCEEEEEEECCChhh
Q 040481           79 RA-------VTSAYYRGAVGALIVYDITRRTT  103 (222)
Q Consensus        79 ~~-------~~~~~~~~~d~vi~v~d~~~~~s  103 (222)
                      ..       .+..+++.+|++++|+|+.+..+
T Consensus       100 as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A          100 AHNGQGLGNAFLSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             -------CCHHHHHHHTSSSEEEEEEC-----
T ss_pred             cchhhHHHHHHHHHHHhcCeEEEEEecCCCcc
Confidence            32       45678899999999999976433

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.28  E-value=3.1e-12  Score=95.93  Aligned_cols=104  Identities=7%  Similarity=-0.015  Sum_probs=69.3

Q ss_pred             CCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHH---HHHHHhcC-CCCCcEEEEEeCC-CCCcCCCCCHHHHHHH
Q 040481           73 AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRW---LDELKTHS-DTTVARMLVGNKC-DLESIRNVSTEEGKSL  147 (222)
Q Consensus        73 ~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~---~~~i~~~~-~~~~p~iiv~nK~-Dl~~~~~~~~~~~~~~  147 (222)
                      +|+..+...|..||.++|++|||+|.+|..-++...++   ...+.... -.++|++|++||. |+.  ..++..++.+.
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp--~Ams~~EI~e~  187 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYLAHE  187 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTS--CBCCHHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCcc--CCCCHHHHHHH
Confidence            47888899999999999999999999988644422222   22222222 2578999999985 674  34555555433


Q ss_pred             HHH----cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          148 AEA----EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       148 ~~~----~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      ...    ..+.+..|||.+|+|+.+.++||++.+.
T Consensus       188 L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~  222 (227)
T 3l82_B          188 LHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  222 (227)
T ss_dssp             TTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTT
T ss_pred             cCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHH
Confidence            221    3466899999999999999999987654

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.15  E-value=5.5e-11  Score=93.40  Aligned_cols=106  Identities=8%  Similarity=-0.017  Sum_probs=74.3

Q ss_pred             CCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHH---HHHHHHHHHhcC-CCCCcEEEEEeC-CCCCcCCCCCHHHHHH
Q 040481           72 TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDS---ISRWLDELKTHS-DTTVARMLVGNK-CDLESIRNVSTEEGKS  146 (222)
Q Consensus        72 ~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~---~~~~~~~i~~~~-~~~~p~iiv~nK-~Dl~~~~~~~~~~~~~  146 (222)
                      .+|+..+...|..||.++|++|||+|.+|++-++.   +.++...+.... ..++|++|++|| .|+.  ..++..++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp--~Ams~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTS--CBCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCccccc--CCCCHHHHHH
Confidence            46788899999999999999999999999875442   222223332221 256899999996 5775  3455555443


Q ss_pred             HHHH----cCCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          147 LAEA----EGLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       147 ~~~~----~~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      ....    ..+.+..|||.+|+|+.+.++|+++.+..
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~  308 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  308 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHh
Confidence            3221    34568999999999999999999987643

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.92  E-value=1.3e-10  Score=95.78  Aligned_cols=140  Identities=12%  Similarity=0.111  Sum_probs=82.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC-----c-CCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh--------hhH
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN-----E-FNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR--------AVT   82 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~-----~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~   82 (222)
                      .+|+++|.+|+|||||+|+|++.     . ......+.  ++.....+.+...   +.++||||.....        ...
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~g--tT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l  237 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPG--TTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDL  237 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTT--SSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCC--eEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHH
Confidence            47999999999999999999886     1 11112222  2233333444332   6799999953221        112


Q ss_pred             HHhh--cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           83 SAYY--RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        83 ~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      ..++  ...++++++++....-.+..+..    +......+.|+++++||.|....... ......+.+..+..+.+.++
T Consensus       238 ~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~  312 (369)
T 3ec1_A          238 KIITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKL-EKADSLYANQLGELLSPPSK  312 (369)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEG-GGHHHHHHHHBTTTBCSSCG
T ss_pred             HHHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccH-HHHHHHHHHhcCCccCCCCc
Confidence            2222  67899999999843311111111    12223356799999999998653333 22334456666776666666


Q ss_pred             CCCCCH
Q 040481          161 LDSTNV  166 (222)
Q Consensus       161 ~~~~~i  166 (222)
                      .+..++
T Consensus       313 ~~~~~~  318 (369)
T 3ec1_A          313 RYAAEF  318 (369)
T ss_dssp             GGTTTC
T ss_pred             hhhhhc
Confidence            554444

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.91  E-value=5.8e-09  Score=85.86  Aligned_cols=96  Identities=21%  Similarity=0.231  Sum_probs=72.2

Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH----HHH
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKS----LAE  149 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~----~~~  149 (222)
                      ..+.|...+..+++.++++++|+|+.+..     ..|...+..... +.|+++|+||+|+.+. ....+...+    ++.
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~-~~p~ilV~NK~DL~~~-~~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVG-NNKVLLVGNKADLIPK-SVKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSS-SSCEEEEEECGGGSCT-TSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhC-CCcEEEEEEChhcCCc-ccCHHHHHHHHHHHHH
Confidence            45778889999999999999999999863     345555555433 5799999999999753 233333333    356


Q ss_pred             HcCC---eEEEEccCCCCCHHHHHHHHHHH
Q 040481          150 AEGL---FFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       150 ~~~~---~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ..+.   .++.+||++|.|++++++.+.+.
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~  157 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYY  157 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhh
Confidence            6677   79999999999999999877653

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.90  E-value=2.6e-09  Score=89.04  Aligned_cols=115  Identities=21%  Similarity=0.271  Sum_probs=59.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCC--ccceeEEEEEEEECC--eEEEEEEEeCCCcchh-------------
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA--TIGVEFQTQSMEIDG--KEVKAQIWDTAGQERF-------------   78 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~--~~~~~~i~D~~G~~~~-------------   78 (222)
                      .++++|+|++|+|||||++.|.+..+......  ..+.......+.+..  ....+.++|++|....             
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~  121 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEF  121 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHH
Confidence            36799999999999999999998754321111  111112222222222  2236789999885321             


Q ss_pred             -hhhHHHhh-------------cC--CC-EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           79 -RAVTSAYY-------------RG--AV-GALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        79 -~~~~~~~~-------------~~--~d-~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                       ...+..++             ..  +| +++|+.|...+-+-..    +..+.... .+.|+|+|.||+|...
T Consensus       122 i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D----ieilk~L~-~~~~vI~Vi~KtD~Lt  190 (427)
T 2qag_B          122 IDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD----LVTMKKLD-SKVNIIPIIAKADAIS  190 (427)
T ss_dssp             HHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH----HHHHHHTC-SCSEEEEEESCGGGSC
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH----HHHHHHHh-hCCCEEEEEcchhccc
Confidence             11111111             11  23 3556666655433111    22222222 5689999999999753

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.87  E-value=1.1e-08  Score=87.24  Aligned_cols=152  Identities=16%  Similarity=0.081  Sum_probs=84.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHh------cCcCC----CCCCCc-----------cceeEEEEEEE-------------
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYA------RNEFN----PHSKAT-----------IGVEFQTQSME-------------   59 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~------~~~~~----~~~~~~-----------~~~~~~~~~~~-------------   59 (222)
                      .....|+++|.+||||||++++|.      +....    ..+.+.           .+.++......             
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~  178 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK  178 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHH
Confidence            345689999999999999999997      33210    011110           01121111000             


Q ss_pred             ECCeEEEEEEEeCCCcchhhh-hH---HHh--hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcE-EEEEeCCC
Q 040481           60 IDGKEVKAQIWDTAGQERFRA-VT---SAY--YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR-MLVGNKCD  132 (222)
Q Consensus        60 ~~~~~~~~~i~D~~G~~~~~~-~~---~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-iiv~nK~D  132 (222)
                      +....+.+.|+||||...... ..   ...  +..+|.+++|+|+.........   ...+...    +|+ ++|+||.|
T Consensus       179 ~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~~---a~~~~~~----~~i~gvVlNK~D  251 (504)
T 2j37_W          179 FKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQ---AKAFKDK----VDVASVIVTKLD  251 (504)
T ss_dssp             HHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHHH---HHHHHHH----HCCCCEEEECTT
T ss_pred             HHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHHH---HHHHHhh----cCceEEEEeCCc
Confidence            000235678999999653221 11   111  2378999999999876542221   2222221    464 88999999


Q ss_pred             CCcCCCCCHHHHHHHHHHcCCeE------------------EEEccCCCCC-HHHHHHHHHHH
Q 040481          133 LESIRNVSTEEGKSLAEAEGLFF------------------METSALDSTN-VKSAFEIVIRE  176 (222)
Q Consensus       133 l~~~~~~~~~~~~~~~~~~~~~~------------------~~~sa~~~~~-i~~~~~~i~~~  176 (222)
                      ......    .+.......++|+                  +.+|+..|.| +.++++++.+.
T Consensus       252 ~~~~~g----~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          252 GHAKGG----GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             SCCCCT----HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             cccchH----HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            864221    1222333444443                  3368888988 98888877654

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.81  E-value=1.5e-10  Score=95.30  Aligned_cols=136  Identities=11%  Similarity=0.129  Sum_probs=75.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC-----CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh--------hHH
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP-----HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA--------VTS   83 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~   83 (222)
                      .+|+++|.+|+|||||+|+|++.....     ......+++.....+.+...   +.++||||......        ...
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  237 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLK  237 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHH
Confidence            479999999999999999998863211     01112223333333444332   67999999533211        111


Q ss_pred             Hh--hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           84 AY--YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        84 ~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      .+  ....+.++++++......+..+.    .+......+.|+++++||.|....... ......+.+..+..+.+.++
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~----~~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~  311 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLA----RFDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPTP  311 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTE----EEEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSCH
T ss_pred             HhccccccCceEEEEcCCCEEEEcceE----EEEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCch
Confidence            12  36678889999874321111111    012222356799999999998653322 22333445556665555443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.76  E-value=1.7e-08  Score=79.62  Aligned_cols=136  Identities=18%  Similarity=0.209  Sum_probs=70.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCC--------CCccceeEEEEEEEECCe--EEEEEEEeCCCcchh-------
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHS--------KATIGVEFQTQSMEIDGK--EVKAQIWDTAGQERF-------   78 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~--~~~~~i~D~~G~~~~-------   78 (222)
                      .++++++|++|+|||||++.|.+...+..-        .+. ........+.....  ...+.++|++|....       
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~-~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~   80 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPK-TVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCW   80 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCC-CCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCc-ceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHH
Confidence            589999999999999999999875432210        011 00001111111111  225779999983210       


Q ss_pred             -----------hhhHH----------HhhcCCCEEEEEEECC-ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481           79 -----------RAVTS----------AYYRGAVGALIVYDIT-RRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus        79 -----------~~~~~----------~~~~~~d~vi~v~d~~-~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                                 .....          ..+..+++.++++|.. .+-.-.. ...+..+..   . .++++|++|.|....
T Consensus        81 ~~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~~---~-~~vI~Vi~K~D~lt~  155 (270)
T 3sop_A           81 EPIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLSK---V-VNIIPVIAKADTMTL  155 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHHT---T-SEEEEEETTGGGSCH
T ss_pred             HHHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHHh---c-CcEEEEEeccccCCH
Confidence                       00000          1123468889999864 3322111 233333433   3 799999999997542


Q ss_pred             CCC--CHHHHHHHHHHcCCeEEE
Q 040481          137 RNV--STEEGKSLAEAEGLFFME  157 (222)
Q Consensus       137 ~~~--~~~~~~~~~~~~~~~~~~  157 (222)
                      .+.  ....+.......++.+++
T Consensus       156 ~e~~~~k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          156 EEKSEFKQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHHHHHHHHcCccccC
Confidence            221  112233344556776654

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.73  E-value=2.7e-08  Score=78.90  Aligned_cols=101  Identities=14%  Similarity=0.075  Sum_probs=68.8

Q ss_pred             EEeCCCcc-hhhhhHHHhhcCCCEEEEEEECCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH
Q 040481           69 IWDTAGQE-RFRAVTSAYYRGAVGALIVYDITRRTTFD--SISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGK  145 (222)
Q Consensus        69 i~D~~G~~-~~~~~~~~~~~~~d~vi~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~  145 (222)
                      +...||+. .........+..+|+++.|+|+.++.+..  .+.+|+        .+.|+++|+||+|+.+...  .+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~~--~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAAV--TQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHHH--HHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHHH--HHHHH
Confidence            44578875 34556677789999999999999987653  334432        3579999999999975211  12223


Q ss_pred             HHHHHcCCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          146 SLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       146 ~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                      ++....+.+++.+||.++.|+.+++..+.+.+.+
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            3344457889999999999999999877766543

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.73  E-value=2.5e-08  Score=82.10  Aligned_cols=96  Identities=21%  Similarity=0.178  Sum_probs=70.1

Q ss_pred             CcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH----HH
Q 040481           74 GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSL----AE  149 (222)
Q Consensus        74 G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~----~~  149 (222)
                      .++.|...+..+++.++++++|+|+.+..+     .|...+.... .+.|+++|+||+|+.+. ....+...++    +.
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l-~~~piilV~NK~DLl~~-~~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA-ADNPILLVGNKADLLPR-SVKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC-TTSCEEEEEECGGGSCT-TCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh-CCCCEEEEEEChhcCCC-ccCHHHHHHHHHHHHH
Confidence            477888899998899999999999999763     3444443333 25799999999999753 2333333333    45


Q ss_pred             HcCC---eEEEEccCCCCCHHHHHHHHHHH
Q 040481          150 AEGL---FFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       150 ~~~~---~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ..+.   .++.+||++|.|++++++.+.+.
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~  159 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRY  159 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhh
Confidence            5666   68999999999999999877654

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.73  E-value=1.5e-07  Score=78.37  Aligned_cols=158  Identities=13%  Similarity=0.109  Sum_probs=82.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCC-CCccceeEEEEEEEE-CCeEEEEEEEeCCCcchhhhhHHH-----hhcCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEI-DGKEVKAQIWDTAGQERFRAVTSA-----YYRGA   89 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~-----~~~~~   89 (222)
                      ..++++|++|+|||||+|.|.+...+..- ....+.+.....+.+ ....-.+.++|++|..........     .+...
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~~  149 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEY  149 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCCHHHHHHHTTGGGC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccccCCeeehHhhcccchHHHHHHHHHHcCCCcc
Confidence            47999999999999999999985322111 111011100000111 111113679999985321111111     22334


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC-------cCCCCCHHHH----HHHHH----HcC--
Q 040481           90 VGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE-------SIRNVSTEEG----KSLAE----AEG--  152 (222)
Q Consensus        90 d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~-------~~~~~~~~~~----~~~~~----~~~--  152 (222)
                      +.+++ ++....+. .. ..+...+..   .+.|+++|.||.|+.       .-+....+..    +++..    ..+  
T Consensus       150 ~~~~~-lS~G~~~k-qr-v~la~aL~~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~  223 (413)
T 1tq4_A          150 DFFII-ISATRFKK-ND-IDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIA  223 (413)
T ss_dssp             SEEEE-EESSCCCH-HH-HHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCS
T ss_pred             CCeEE-eCCCCccH-HH-HHHHHHHHh---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            55554 77753221 11 122222222   346999999999963       1122233332    33321    222  


Q ss_pred             -CeEEEEcc--CCCCCHHHHHHHHHHHHHHH
Q 040481          153 -LFFMETSA--LDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       153 -~~~~~~sa--~~~~~i~~~~~~i~~~~~~~  180 (222)
                       ..++.+|+  .++.|++++.+.+.+.+-+.
T Consensus       224 ~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg  254 (413)
T 1tq4_A          224 EPPIFLLSNKNVCHYDFPVLMDKLISDLPIY  254 (413)
T ss_dssp             SCCEEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             CCcEEEEecCcCCccCHHHHHHHHHHhCccc
Confidence             35788999  55567999988887765443

>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=98.43  E-value=4.1e-07  Score=76.17  Aligned_cols=142  Identities=17%  Similarity=0.125  Sum_probs=78.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC------cC----CCCCCC-----------ccceeEEEEEEEEC------------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN------EF----NPHSKA-----------TIGVEFQTQSMEID------------   61 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~------~~----~~~~~~-----------~~~~~~~~~~~~~~------------   61 (222)
                      ....|+++|++|+||||++..|...      ..    ...+.+           ..+.++.......+            
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999988631      11    011111           01111111000000            


Q ss_pred             -CeEEEEEEEeCCCcchhhhhH----H--HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           62 -GKEVKAQIWDTAGQERFRAVT----S--AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        62 -~~~~~~~i~D~~G~~~~~~~~----~--~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                       ...+.+.|+||+|........    .  .....+|.+++|+|+..++.-....   ..+....   .+..||+||.|..
T Consensus       179 ~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~a---~~f~~~~---~i~gVIlTKlD~~  252 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQA---LAFKEAT---PIGSIIVTKLDGS  252 (443)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHH---HHHHHSC---TTEEEEEECCSSC
T ss_pred             HhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHHH---HHHHhhC---CCeEEEEECCCCc
Confidence             012567899999943321111    1  1234579999999998775432222   2333222   2457899999986


Q ss_pred             cCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      ..    .-.+.......+.|+..++.  |+++++
T Consensus       253 ~~----gG~~ls~~~~~g~PI~fig~--Ge~vdd  280 (443)
T 3dm5_A          253 AK----GGGALSAVAATGAPIKFIGT--GEKIDD  280 (443)
T ss_dssp             SS----HHHHHHHHHTTCCCEEEEEC--SSSTTC
T ss_pred             cc----ccHHHHHHHHHCCCEEEEEc--CCChHH
Confidence            32    22344555667888776664  555443

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.42  E-value=2.1e-07  Score=73.81  Aligned_cols=58  Identities=26%  Similarity=0.391  Sum_probs=36.0

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE   76 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   76 (222)
                      ...++|+++|.+|||||||+|+|.+...... ..+.++  .....+..+.   .+.++||||..
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T--~~~~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGIT--TSQQWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCCCee--eeeEEEEeCC---CEEEEECcCcC
Confidence            3568999999999999999999998764322 222222  2222333332   36799999964

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.29  E-value=2e-07  Score=73.15  Aligned_cols=58  Identities=21%  Similarity=0.308  Sum_probs=35.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      ++++++|.+|+|||||+|+|.+...... .++.+++.....+..+.   .+.+|||||....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~~  157 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSV-GAQPGITKGIQWFSLEN---GVKILDTPGILYK  157 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhccccccc-CCCCCCccceEEEEeCC---CEEEEECCCcccC
Confidence            6999999999999999999998765322 12222222222222222   4679999996543

>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=98.25  E-value=3e-06  Score=71.02  Aligned_cols=84  Identities=15%  Similarity=0.009  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCCcchhhhhHH----H--hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCC-c-EEEEEeCCCCCc
Q 040481           64 EVKAQIWDTAGQERFRAVTS----A--YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTV-A-RMLVGNKCDLES  135 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~----~--~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p-~iiv~nK~Dl~~  135 (222)
                      .+.+.|+||||.........    .  .+..+|.+++|+|+..+...   ......+..    .. | ..+|+||.|...
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~---~~~~~~~~~----~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQA---GIQAKAFKE----AVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGH---HHHHHHHHT----TSCSCEEEEEECSSSCS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHH---HHHHHHHhh----cccCCeEEEEeCCCCcc
Confidence            34578999999654321111    1  12368999999999776531   112222221    23 4 688899999753


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEE
Q 040481          136 IRNVSTEEGKSLAEAEGLFFMET  158 (222)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~  158 (222)
                      .    ...+.......+.++..+
T Consensus       253 ~----~g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          253 K----GGGALSAVAETKAPIKFI  271 (432)
T ss_dssp             T----THHHHHHHHHSSCCEEEE
T ss_pred             c----hHHHHHHHHHHCCCEEEe
Confidence            1    122334566667775554

>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=98.23  E-value=9.7e-07  Score=73.84  Aligned_cols=92  Identities=14%  Similarity=0.074  Sum_probs=54.6

Q ss_pred             EEEEEEEeCCCcch--hhhh----HHH--hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           64 EVKAQIWDTAGQER--FRAV----TSA--YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        64 ~~~~~i~D~~G~~~--~~~~----~~~--~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .+.+.++||||...  .+..    ...  .....+.+++|+|+..++......   ..+....   .+..||+||.|...
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~a---~~f~~~~---~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLA---SRFHQAS---PIGSVIITKMDGTA  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHHH---HHHHHHC---SSEEEEEECGGGCS
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHHH---HHHhccc---CCcEEEEecccccc
Confidence            34577999999533  1111    111  112468999999998775433322   2222221   25688999999753


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481          136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                          ..-.+.......+.|+..++.  |++++
T Consensus       253 ----~~G~als~~~~~g~Pi~fig~--Ge~v~  278 (433)
T 3kl4_A          253 ----KGGGALSAVVATGATIKFIGT--GEKID  278 (433)
T ss_dssp             ----CHHHHHHHHHHHTCEEEEEEC--CSSSS
T ss_pred             ----cchHHHHHHHHHCCCEEEEEC--CCChH
Confidence                223455566677899877775  65553

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.19  E-value=9.4e-07  Score=76.63  Aligned_cols=63  Identities=17%  Similarity=0.113  Sum_probs=38.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCc---cceeEEEEEEEE-CCeEEEEEEEeCCCcc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKAT---IGVEFQTQSMEI-DGKEVKAQIWDTAGQE   76 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~---~~~~~~~~~~~~-~~~~~~~~i~D~~G~~   76 (222)
                      .+.++|+|+|.+++|||||+|+|++.........+   .+.........+ ......+.++||||..
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~  102 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLG  102 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcC
Confidence            45689999999999999999999987642111111   111111111111 1223457799999954

>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=98.14  E-value=8.7e-06  Score=64.90  Aligned_cols=93  Identities=14%  Similarity=0.040  Sum_probs=56.7

Q ss_pred             EEEEEEEeCCCcch--hhhhHH------HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCC
Q 040481           64 EVKAQIWDTAGQER--FRAVTS------AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLE  134 (222)
Q Consensus        64 ~~~~~i~D~~G~~~--~~~~~~------~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~  134 (222)
                      .+.+.++||||...  ......      .....+|.+++|+|+......   ......+..    ..| ..+|+||.|..
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~---~~~~~~~~~----~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKA---YDLASKFNQ----ASKIGTIIITKMDGT  252 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGH---HHHHHHHHH----TCTTEEEEEECGGGC
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHH---HHHHHHHHh----hCCCCEEEEeCCCCC
Confidence            34578999999765  322111      124568999999999765332   112222322    235 57889999975


Q ss_pred             cCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481          135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      .    ....+.......+.++..++  .|++++++
T Consensus       253 ~----~~g~~~~~~~~~~~pi~~i~--~Ge~v~dl  281 (297)
T 1j8m_F          253 A----KGGGALSAVAATGATIKFIG--TGEKIDEL  281 (297)
T ss_dssp             T----THHHHHHHHHTTTCCEEEEE--CSSSTTCE
T ss_pred             c----chHHHHHHHHHHCcCEEEEe--CCCChhhc
Confidence            3    23345566777888887766  56666543

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.13  E-value=6.8e-06  Score=71.89  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .|+|+|++|||||||++.|.+..
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            59999999999999999999864

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.10  E-value=1.2e-06  Score=70.02  Aligned_cols=88  Identities=13%  Similarity=0.122  Sum_probs=61.3

Q ss_pred             hHHHhhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHHcCCeEEE
Q 040481           81 VTSAYYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNV--STEEGKSLAEAEGLFFME  157 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~  157 (222)
                      ..+....++|.+++|+|+.++. +...+.+++.....   .++|.+||+||+||.+....  ..+....+....+.+++.
T Consensus        79 l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~---~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~  155 (307)
T 1t9h_A           79 LIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYL  155 (307)
T ss_dssp             ETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEE
T ss_pred             hhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEEE
Confidence            3344689999999999999775 34455555554443   45788999999999754220  112334445556889999


Q ss_pred             EccCCCCCHHHHHH
Q 040481          158 TSALDSTNVKSAFE  171 (222)
Q Consensus       158 ~sa~~~~~i~~~~~  171 (222)
                      +||.++.|+++++.
T Consensus       156 ~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          156 TSSKDQDSLADIIP  169 (307)
T ss_dssp             CCHHHHTTCTTTGG
T ss_pred             EecCCCCCHHHHHh
Confidence            99999988876654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.10  E-value=2e-06  Score=67.41  Aligned_cols=93  Identities=12%  Similarity=0.049  Sum_probs=60.8

Q ss_pred             CCCcchh-hhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH
Q 040481           72 TAGQERF-RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA  150 (222)
Q Consensus        72 ~~G~~~~-~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~  150 (222)
                      .||+... .......+.++|++|.|+|+.++.+....     .+. ..  ++|.++|+||+|+.+...  .+....+...
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~-----~l~-ll--~k~~iivlNK~DL~~~~~--~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAY-----GVD-FS--RKETIILLNKVDIADEKT--TKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCT-----TSC-CT--TSEEEEEEECGGGSCHHH--HHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcCh-----HHH-hc--CCCcEEEEECccCCCHHH--HHHHHHHHHH
Confidence            4676533 34566778999999999999988763321     011 11  679999999999975311  1222334445


Q ss_pred             cCCeEEEEccCCCCCHHHHHHHHHH
Q 040481          151 EGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       151 ~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      .+.++ .+||.++.|+++++..+..
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHH
Confidence            67888 9999999999998876543

>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=98.01  E-value=1.5e-05  Score=64.38  Aligned_cols=142  Identities=15%  Similarity=0.120  Sum_probs=76.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCC----------CC-----------ccceeEEEEEEEEC-------------
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHS----------KA-----------TIGVEFQTQSMEID-------------   61 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~----------~~-----------~~~~~~~~~~~~~~-------------   61 (222)
                      .--++++|++|+||||+++.|.+...+...          ..           ..+..+........             
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql~~~~~~~gv~~v~q~~~~~p~~~v~e~l~~~~  208 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQHAK  208 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHHHHHHHHTTCEEECCCTTCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHHHHHHHHcCceEEeccccCCHHHHHHHHHHHHH
Confidence            357899999999999999999653211100          00           00111111000000             


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHH------hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSA------YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~------~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      ...+.+.++|++|..........      ..-..|..+++.|+...+..   ......+.....   ..++++||.|...
T Consensus       209 ~~~~d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~~~---~~~~~~~~~~~~---it~iilTKlD~~a  282 (328)
T 3e70_C          209 ARGIDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGNAI---VEQARQFNEAVK---IDGIILTKLDADA  282 (328)
T ss_dssp             HHTCSEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTTHH---HHHHHHHHHHSC---CCEEEEECGGGCS
T ss_pred             hccchhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHHHH---HHHHHHHHHhcC---CCEEEEeCcCCcc
Confidence            01123557999996432211111      11236889999998776432   222333332221   3378899999632


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481          136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      .    .-.+.......+.|+..++  +|++++++
T Consensus       283 ~----~G~~l~~~~~~~~pi~~i~--~Ge~v~dl  310 (328)
T 3e70_C          283 R----GGAALSISYVIDAPILFVG--VGQGYDDL  310 (328)
T ss_dssp             C----CHHHHHHHHHHTCCEEEEE--CSSSTTCE
T ss_pred             c----hhHHHHHHHHHCCCEEEEe--CCCCcccc
Confidence            1    2234556777788877776  67776554

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.83  E-value=4.4e-05  Score=62.26  Aligned_cols=84  Identities=21%  Similarity=0.186  Sum_probs=56.5

Q ss_pred             hhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-HHHHHHHHHHcCCeEEEEccCC
Q 040481           85 YYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS-TEEGKSLAEAEGLFFMETSALD  162 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~sa~~  162 (222)
                      ...++|.+++|++.. +. +...+..++......   ++|.+||+||+||.+..... .+.........+++++.+||.+
T Consensus       127 i~anvD~v~iv~a~~-P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAIL-PELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEEST-TTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeCC-CCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            468899999887764 54 455556666555443   46789999999997532100 1112233345688999999999


Q ss_pred             CCCHHHHHHH
Q 040481          163 STNVKSAFEI  172 (222)
Q Consensus       163 ~~~i~~~~~~  172 (222)
                      +.|++++...
T Consensus       203 ~~gl~~L~~~  212 (358)
T 2rcn_A          203 QDGLKPLEEA  212 (358)
T ss_dssp             TBTHHHHHHH
T ss_pred             CcCHHHHHHh
Confidence            9999987653

>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=97.80  E-value=1.6e-06  Score=73.67  Aligned_cols=102  Identities=15%  Similarity=0.109  Sum_probs=58.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--hhhhH--------H
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--FRAVT--------S   83 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~--------~   83 (222)
                      .....|+++|.+|+||||+.++|....... ..++.............+......+||..|...  ....+        .
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~~-~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~  115 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNFI-GVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVR  115 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhcc-CCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHH
Confidence            345789999999999999999997543211 011100000000000011112235789888632  22222        4


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhc
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTH  117 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~  117 (222)
                      .++....+.++|+|.++. +.+....|+..+...
T Consensus       116 ~~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          116 KFLSEEGGHVAVFDATNT-TRERRAMIFNFGEQN  148 (469)
T ss_dssp             HHHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc
Confidence            566667888999999988 456667777766554

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.59  E-value=6.5e-05  Score=63.03  Aligned_cols=26  Identities=23%  Similarity=0.264  Sum_probs=22.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+..-|.|+|++++|||+|+|.|++.
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhh
Confidence            35567899999999999999999863

>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=97.41  E-value=8.7e-05  Score=54.55  Aligned_cols=23  Identities=35%  Similarity=0.653  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +++++|++|+|||||++.+.+..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999997754

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.40  E-value=0.0041  Score=52.06  Aligned_cols=81  Identities=16%  Similarity=0.087  Sum_probs=45.2

Q ss_pred             EEEEEEEeCCCcchhhhhHH------HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcC
Q 040481           64 EVKAQIWDTAGQERFRAVTS------AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESI  136 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~------~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~  136 (222)
                      .+.+.|+||||.........      .....++.+++|+|+......-..   ...+...    .+ .-+|+||.|....
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~~~---~~~f~~~----l~i~gvVlnK~D~~~~  255 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANT---AKAFNEA----LPLTGVVLTKVDGDAR  255 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHHHH---HHHHHHH----SCCCCEEEECTTSSSC
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHHHH---HHHHhcc----CCCeEEEEecCCCCcc
Confidence            35678999999644322111      124468999999999766432221   2222221    23 2478999997532


Q ss_pred             CCCCHHHHHHHHHHcCCeE
Q 040481          137 RNVSTEEGKSLAEAEGLFF  155 (222)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~  155 (222)
                      .  .  .+.......+.|+
T Consensus       256 ~--g--~~l~i~~~~~~Pi  270 (433)
T 2xxa_A          256 G--G--AALSIRHITGKPI  270 (433)
T ss_dssp             C--T--HHHHHHHHHCCCE
T ss_pred             H--H--HHHHHHHHHCCCe
Confidence            2  1  3334555556553

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.32  E-value=0.00012  Score=53.75  Aligned_cols=22  Identities=18%  Similarity=0.507  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|+|++|||||||++.|.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999764

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.29  E-value=0.00013  Score=54.47  Aligned_cols=22  Identities=36%  Similarity=0.591  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|+|||||++.|.+.
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999763

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.19  E-value=0.00064  Score=54.18  Aligned_cols=22  Identities=45%  Similarity=0.684  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||+|.|. ..
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hh
Confidence            57999999999999999998 43

>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=97.18  E-value=0.00019  Score=53.81  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.|.+..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            57899999999999999998754

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.18  E-value=0.00075  Score=47.46  Aligned_cols=22  Identities=9%  Similarity=0.303  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|++.|++|+|||++++.+...
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCT
T ss_pred             cEEEECCCCccHHHHHHHHHHh
Confidence            5899999999999999988653

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.17  E-value=0.0002  Score=53.29  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|+|++|||||||++.|.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            4899999999999999999874

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.17  E-value=0.0016  Score=52.37  Aligned_cols=93  Identities=16%  Similarity=0.109  Sum_probs=51.1

Q ss_pred             EEEEEEEeCCCcchhhhhHH-------Hhh-----cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040481           64 EVKAQIWDTAGQERFRAVTS-------AYY-----RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC  131 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~-------~~~-----~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~  131 (222)
                      .+.+.|+||||.........       ..+     ..+|.+++|+++...  .+.+... ..+..   .-...-+|.||.
T Consensus       191 ~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~--~~~l~~~-~~~~~---~~~i~GvVltk~  264 (320)
T 1zu4_A          191 NYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTG--QNGVIQA-EEFSK---VADVSGIILTKM  264 (320)
T ss_dssp             TCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGT--HHHHHHH-HHHTT---TSCCCEEEEECG
T ss_pred             CCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCc--HHHHHHH-HHHhh---cCCCcEEEEeCC
Confidence            35678999999654321110       111     347899999999754  2222221 22221   111234789999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       132 Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      |....  .  ..+.......+.|+..+.  .|+++++
T Consensus       265 d~~~~--~--g~~~~~~~~~~~Pi~~i~--~Ge~~~d  295 (320)
T 1zu4_A          265 DSTSK--G--GIGLAIKELLNIPIKMIG--VGEKVDD  295 (320)
T ss_dssp             GGCSC--T--THHHHHHHHHCCCEEEEE--CSSSTTC
T ss_pred             CCCCc--h--hHHHHHHHHHCcCEEEEe--CCCCccc
Confidence            96432  1  245566677788866554  3445544

>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=97.16  E-value=0.00021  Score=54.31  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+||+|||||||++.|.+..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            57899999999999999998753

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.15  E-value=0.0001  Score=58.85  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|||||||+|.|.+..
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHhcccc
Confidence            78999999999999999998754

>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=97.14  E-value=0.00022  Score=52.51  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+++|++|||||||++.|.+.
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999999875

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.13  E-value=0.00024  Score=53.89  Aligned_cols=23  Identities=35%  Similarity=0.536  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            47899999999999999998743

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.09  E-value=0.00023  Score=51.74  Aligned_cols=20  Identities=35%  Similarity=0.527  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 040481           18 KIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~   37 (222)
                      -++++|++|||||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47899999999999999754

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.08  E-value=0.00027  Score=54.32  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|||||||++.+.+..
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999988654

>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=97.08  E-value=0.0016  Score=54.37  Aligned_cols=85  Identities=16%  Similarity=0.029  Sum_probs=47.5

Q ss_pred             EEEEEEeCCCcchhhhhHH------HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           65 VKAQIWDTAGQERFRAVTS------AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~------~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                      +.+.++||||.........      ...-.+|.+++|+|+...+..-   .....+....  + ..-+|+||.|....  
T Consensus       181 ~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tgq~av---~~a~~f~~~l--~-i~GVIlTKlD~~~~--  252 (425)
T 2ffh_A          181 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEAL---SVARAFDEKV--G-VTGLVLTKLDGDAR--  252 (425)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTTHHH---HHHHHHHHHT--C-CCEEEEESGGGCSS--
T ss_pred             CCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccchHHHH---HHHHHHHhcC--C-ceEEEEeCcCCccc--
Confidence            4577999999643321111      1123588999999987553322   2222222221  1 24678999986431  


Q ss_pred             CCHHHHHHHHHHcCCeEEEEc
Q 040481          139 VSTEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~s  159 (222)
                        ...+.......+.|+..+.
T Consensus       253 --~g~alsi~~~~g~PI~flg  271 (425)
T 2ffh_A          253 --GGAALSARHVTGKPIYFAG  271 (425)
T ss_dssp             --CHHHHHHHHHHCCCEEEEE
T ss_pred             --HHHHHHHHHHHCCCEEEEe
Confidence              1234456667788866554

>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=97.07  E-value=0.0003  Score=50.60  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|+.|+|||||++.+.+..
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999999999998765

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.07  E-value=0.00028  Score=52.96  Aligned_cols=25  Identities=24%  Similarity=0.223  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -..|+|+|++|+|||||++.|.+..
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999997643

>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=97.02  E-value=0.00034  Score=52.18  Aligned_cols=22  Identities=32%  Similarity=0.584  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+|+||+|+|||||+++|.+.
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5789999999999999999864

>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=97.01  E-value=0.00038  Score=51.46  Aligned_cols=21  Identities=48%  Similarity=0.627  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|+||+||||+||+++|+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999754

>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=97.01  E-value=0.00036  Score=52.40  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -|+|+||+|||||||++.|.+..
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHST
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            58899999999999999998753

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.01  E-value=0.00032  Score=53.46  Aligned_cols=23  Identities=39%  Similarity=0.421  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999988653

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.01  E-value=0.00037  Score=53.67  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+..
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998754

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.96  E-value=0.0004  Score=54.24  Aligned_cols=23  Identities=43%  Similarity=0.444  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+..
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998753

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.96  E-value=0.00041  Score=52.47  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46899999999999999998753

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.95  E-value=0.00041  Score=54.57  Aligned_cols=23  Identities=30%  Similarity=0.483  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999998754

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.93  E-value=0.00048  Score=52.91  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998753

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.93  E-value=0.00044  Score=53.83  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998754

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.92  E-value=0.00049  Score=49.74  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|+|++||||||+.+.|.+.
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998764

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.92  E-value=0.00045  Score=54.05  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999998754

>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=96.91  E-value=0.0005  Score=50.58  Aligned_cols=21  Identities=38%  Similarity=0.491  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -++++|++|+|||||++.|.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.90  E-value=0.00053  Score=52.88  Aligned_cols=23  Identities=35%  Similarity=0.345  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57999999999999999998754

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.90  E-value=0.00049  Score=52.57  Aligned_cols=23  Identities=22%  Similarity=0.365  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|+.|+|||||++.+.+..
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998753

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.89  E-value=0.00049  Score=53.74  Aligned_cols=23  Identities=39%  Similarity=0.489  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            57899999999999999998753

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.89  E-value=0.0005  Score=52.95  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998753

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.88  E-value=0.00055  Score=52.94  Aligned_cols=23  Identities=39%  Similarity=0.367  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998753

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.88  E-value=0.00042  Score=52.20  Aligned_cols=22  Identities=23%  Similarity=0.238  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++++|++|+|||||++.+.+.
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999875

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.88  E-value=0.00052  Score=53.39  Aligned_cols=23  Identities=22%  Similarity=0.236  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998753

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.88  E-value=0.00053  Score=51.01  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .|+|+|++||||||+++.|.+..
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            68999999999999999997754

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.88  E-value=0.00058  Score=55.64  Aligned_cols=24  Identities=33%  Similarity=0.385  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF   41 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~   41 (222)
                      .++++|++|+|||||+|.|.+...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            689999999999999999998653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.87  E-value=0.0033  Score=44.17  Aligned_cols=24  Identities=8%  Similarity=0.113  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..|++.|++|+|||++++.+....
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhC
Confidence            358999999999999999997643

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.87  E-value=0.00056  Score=52.98  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|+|||||++.+.+.
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999885

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.87  E-value=0.00054  Score=53.07  Aligned_cols=23  Identities=35%  Similarity=0.540  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999998753

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.86  E-value=0.00057  Score=51.03  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+|+|++|||||||++.|...
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5799999999999999999753

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.86  E-value=0.00058  Score=50.83  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|+|++|||||||++.|.+.
T Consensus        31 ~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           31 HVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6899999999999999999653

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.84  E-value=0.00061  Score=53.31  Aligned_cols=22  Identities=32%  Similarity=0.395  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|+|||||++.+.+.
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999885

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.84  E-value=0.00063  Score=53.02  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|+|||||++.+.+.
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5799999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.83  E-value=0.00063  Score=50.93  Aligned_cols=23  Identities=43%  Similarity=0.589  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|+|+|++|||||||++.|.+.
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999774

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.83  E-value=0.00066  Score=53.49  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999998754

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.82  E-value=0.00059  Score=53.54  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998754

>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=96.82  E-value=0.00072  Score=52.04  Aligned_cols=21  Identities=33%  Similarity=0.596  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~   37 (222)
                      ..|+|+|++|||||||++.|.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999998

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.81  E-value=0.00058  Score=50.59  Aligned_cols=22  Identities=23%  Similarity=0.522  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++++|++|+|||||++.+.+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            4789999999999999999764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.81  E-value=0.00064  Score=53.01  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|||||||++.+.+.
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHh
Confidence            6899999999999999999763

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.80  E-value=0.00064  Score=52.76  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998754

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.79  E-value=0.00071  Score=53.96  Aligned_cols=23  Identities=26%  Similarity=0.263  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+-.
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhhc
Confidence            68999999999999999998643

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.79  E-value=0.00047  Score=51.33  Aligned_cols=23  Identities=35%  Similarity=0.364  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|+|+|++||||||+.+.|...
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999998653

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.78  E-value=0.00067  Score=53.07  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999998753

>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=96.78  E-value=0.00072  Score=48.62  Aligned_cols=19  Identities=32%  Similarity=0.398  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 040481           18 KIVIIGDSAVGKSNLLSRY   36 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l   36 (222)
                      -|+|.|++||||||+.+.|
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999999

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=96.77  E-value=0.0015  Score=49.01  Aligned_cols=85  Identities=14%  Similarity=0.069  Sum_probs=54.2

Q ss_pred             EEEEEEeCCCc-chhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040481           65 VKAQIWDTAGQ-ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEE  143 (222)
Q Consensus        65 ~~~~i~D~~G~-~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~  143 (222)
                      +.+.++|+|+. ...  .....+..+|.+|+++..+ ..++..+...+..+....  +.++.+|+|+.|.... .. ..+
T Consensus        68 yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~-~~-~~~  140 (209)
T 3cwq_A           68 YQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPS-KD-GDE  140 (209)
T ss_dssp             CSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTS-CH-HHH
T ss_pred             CCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccc-hH-HHH
Confidence            45779999876 332  3345677899999998874 445666666666666533  3567899999985420 11 234


Q ss_pred             HHHHHHHcCCeEE
Q 040481          144 GKSLAEAEGLFFM  156 (222)
Q Consensus       144 ~~~~~~~~~~~~~  156 (222)
                      ..+.....+.+++
T Consensus       141 ~~~~l~~~g~~v~  153 (209)
T 3cwq_A          141 ARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHTTCCBC
T ss_pred             HHHHHHHcCCchh
Confidence            4455555665544

>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=96.77  E-value=0.00061  Score=49.72  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -.++++|++|+|||||++.+.+..
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            368999999999999999987643

>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=96.75  E-value=0.00077  Score=48.50  Aligned_cols=22  Identities=18%  Similarity=0.332  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|.|++||||||+.+.|...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998653

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.73  E-value=0.00087  Score=52.32  Aligned_cols=23  Identities=30%  Similarity=0.509  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.73  E-value=0.00089  Score=48.54  Aligned_cols=22  Identities=27%  Similarity=0.329  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .-|++.|++||||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            3589999999999999999976

>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=96.71  E-value=0.00081  Score=53.85  Aligned_cols=27  Identities=30%  Similarity=0.213  Sum_probs=22.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ....-|+|+|++|||||||++.|.+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            344688999999999999999997743

>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=96.70  E-value=0.001  Score=48.13  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      -.|+++|++||||||+++.|.+
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999865

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.69  E-value=0.001  Score=52.97  Aligned_cols=23  Identities=35%  Similarity=0.340  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||+|.|.+..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            57899999999999999998754

>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=96.69  E-value=0.00091  Score=49.74  Aligned_cols=23  Identities=30%  Similarity=0.284  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .-|+|+|++|+|||||++.|.+.
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998664

>1sxj_E Activator 1 40 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=96.68  E-value=0.0074  Score=48.70  Aligned_cols=21  Identities=14%  Similarity=0.300  Sum_probs=19.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++.|++|+||||+++.+.+.
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998773

>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=96.67  E-value=0.0025  Score=52.02  Aligned_cols=23  Identities=17%  Similarity=0.293  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|.|++|+|||||++.+.+..
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999987643

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.67  E-value=0.0011  Score=49.28  Aligned_cols=21  Identities=33%  Similarity=0.558  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+++|++||||||+.+.|..
T Consensus        27 ~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           27 RIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            789999999999999999864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.67  E-value=0.00058  Score=52.00  Aligned_cols=22  Identities=18%  Similarity=0.391  Sum_probs=14.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHh-cC
Q 040481           18 KIVIIGDSAVGKSNLLSRYA-RN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~-~~   39 (222)
                      -++|+|++|||||||++.|. +.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            58999999999999999998 54

>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=96.66  E-value=0.00087  Score=50.62  Aligned_cols=23  Identities=22%  Similarity=0.237  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+..
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57999999999999999998743

>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=96.66  E-value=0.001  Score=48.26  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|++.|++||||||+.+.|...
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999999763

>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=96.64  E-value=0.0027  Score=47.22  Aligned_cols=21  Identities=24%  Similarity=0.414  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++.|++|+|||+|++.+...
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998653

>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=96.63  E-value=0.0012  Score=49.93  Aligned_cols=22  Identities=36%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|+|++||||||+.+.|.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999865

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.62  E-value=0.00097  Score=54.36  Aligned_cols=23  Identities=43%  Similarity=0.538  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999998754

>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=96.61  E-value=0.0014  Score=48.82  Aligned_cols=22  Identities=14%  Similarity=0.409  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      +.|+|+|++||||||+.+.|.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999976

>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=96.61  E-value=0.0012  Score=48.26  Aligned_cols=23  Identities=22%  Similarity=0.231  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .-++++|++|+|||||+++|...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46899999999999999999864

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.59  E-value=0.00071  Score=54.00  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+-.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCchHHHHHHHHHcCC
Confidence            68999999999999999987643

>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=96.59  E-value=0.0012  Score=49.08  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .+|+|+|++||||||+.+.|.+
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3699999999999999999976

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.59  E-value=0.0011  Score=52.52  Aligned_cols=23  Identities=22%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|+.|+|||||++.+.+..
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999998753

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.59  E-value=0.0095  Score=47.79  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|++.|++|+|||+|++.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35899999999999999999654

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.59  E-value=0.0012  Score=53.99  Aligned_cols=23  Identities=35%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+..
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCC
Confidence            47899999999999999998754

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.58  E-value=0.0012  Score=53.87  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998754

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.58  E-value=0.0011  Score=49.73  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      +|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999854

>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=96.56  E-value=0.0012  Score=49.65  Aligned_cols=21  Identities=24%  Similarity=0.403  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      +|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999854

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.56  E-value=0.0012  Score=53.81  Aligned_cols=23  Identities=26%  Similarity=0.302  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            47899999999999999998754

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.56  E-value=0.001  Score=54.37  Aligned_cols=25  Identities=28%  Similarity=0.368  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .-+++|+|++|+|||||++.|.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998753

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.55  E-value=0.0013  Score=53.78  Aligned_cols=23  Identities=35%  Similarity=0.379  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999998754

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.54  E-value=0.0013  Score=54.03  Aligned_cols=23  Identities=43%  Similarity=0.520  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            47899999999999999998754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.54  E-value=0.0013  Score=50.62  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|+|+|+.|||||||++.|.+.
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999763

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.53  E-value=0.0013  Score=51.67  Aligned_cols=21  Identities=24%  Similarity=0.427  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      ++++|++|+|||||++++.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999999874

>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=96.53  E-value=0.0018  Score=48.29  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=22.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .....|+|+|++|+|||||++.|.+.
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            33467999999999999999999764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.51  E-value=0.0016  Score=48.21  Aligned_cols=21  Identities=33%  Similarity=0.577  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+|.|++||||||+.+.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999999865

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.51  E-value=0.0014  Score=53.73  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            46899999999999999998754

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.50  E-value=0.0011  Score=47.17  Aligned_cols=23  Identities=30%  Similarity=0.524  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||+|++.+.+..
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999997744

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.50  E-value=0.0014  Score=53.78  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            47899999999999999998754

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.50  E-value=0.00066  Score=49.47  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .|+|+|++|+|||||++.|.+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999997643

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.49  E-value=0.0016  Score=47.63  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|.|++||||||+.+.|..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999865

>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=96.46  E-value=0.0015  Score=53.35  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|+|++|||||||++.+.+.
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            6899999999999999999764

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.46  E-value=0.0018  Score=47.32  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+++|++||||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999854

>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=96.45  E-value=0.0018  Score=49.96  Aligned_cols=27  Identities=26%  Similarity=0.350  Sum_probs=21.3

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      +....+.|+|.|++||||||+.+.|..
T Consensus        18 ~~~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           18 NGGEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             ---CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            344557899999999999999998855

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.43  E-value=0.0024  Score=46.62  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999864

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.43  E-value=0.0017  Score=50.12  Aligned_cols=21  Identities=29%  Similarity=0.583  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      ++++|++|+|||||++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999999864

>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=96.42  E-value=0.0017  Score=47.46  Aligned_cols=22  Identities=18%  Similarity=0.173  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|.|++||||||+.+.|..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999865

>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=96.41  E-value=0.0018  Score=48.67  Aligned_cols=21  Identities=29%  Similarity=0.518  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+++|+|||||+|....|..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>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=96.41  E-value=0.0017  Score=51.82  Aligned_cols=84  Identities=11%  Similarity=-0.048  Sum_probs=45.8

Q ss_pred             EEEEEeCCCcchhhh------------hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040481           66 KAQIWDTAGQERFRA------------VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL  133 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~------------~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl  133 (222)
                      .+.++|++|......            ..+......+.++++.|+......-..   +..+....  + ..+|++||.|.
T Consensus       186 d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~~~~---~~~~~~~~--~-~t~iivTh~d~  259 (304)
T 1rj9_A          186 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQ---AKKFHEAV--G-LTGVIVTKLDG  259 (304)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHH---HHHHHHHH--C-CSEEEEECTTS
T ss_pred             CEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHHHHH---HHHHHHHc--C-CcEEEEECCcc
Confidence            345889999532211            111233457788889998776542222   22222211  1 23788999986


Q ss_pred             CcCCCCCHHHHHHHHHHcCCeEEEEc
Q 040481          134 ESIRNVSTEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~s  159 (222)
                      ...  .  -.+.......+.|+..+.
T Consensus       260 ~a~--g--g~~l~i~~~~~~pi~~ig  281 (304)
T 1rj9_A          260 TAK--G--GVLIPIVRTLKVPIKFVG  281 (304)
T ss_dssp             SCC--C--TTHHHHHHHHCCCEEEEE
T ss_pred             ccc--c--cHHHHHHHHHCCCeEEEe
Confidence            432  1  123345666777766554

>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=96.40  E-value=0.0016  Score=47.75  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999865

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.37  E-value=0.019  Score=46.04  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.|++.|++|+|||+|++++...
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            47899999999999999999764

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.37  E-value=0.0012  Score=53.72  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            47899999999999999998754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.37  E-value=0.0024  Score=51.29  Aligned_cols=26  Identities=31%  Similarity=0.252  Sum_probs=21.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...+-|+|+|++|||||||++.|.+.
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999999998654

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.36  E-value=0.0017  Score=52.36  Aligned_cols=23  Identities=13%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998753

>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=96.36  E-value=0.0024  Score=49.14  Aligned_cols=24  Identities=13%  Similarity=0.145  Sum_probs=21.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ....|+|.|++||||||+.+.|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.35  E-value=0.0019  Score=51.40  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      --++++|++||||||+++.|.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            3689999999999999999965

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.34  E-value=0.0028  Score=47.01  Aligned_cols=24  Identities=17%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ....|+|.|++||||||+.+.|..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998864

>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=96.34  E-value=0.002  Score=47.77  Aligned_cols=23  Identities=17%  Similarity=0.468  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ...|+|.|++||||||+.+.|..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999865

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.34  E-value=0.0027  Score=50.14  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..-|++.|++||||||+.+.|..
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999965

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.34  E-value=0.0018  Score=46.90  Aligned_cols=21  Identities=43%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      +|+|+|++||||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999999864

>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=96.33  E-value=0.0027  Score=50.27  Aligned_cols=26  Identities=19%  Similarity=0.128  Sum_probs=21.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .....|+|+|++|||||||++.|.+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34568999999999999999988653

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.33  E-value=0.0018  Score=52.91  Aligned_cols=23  Identities=26%  Similarity=0.514  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            78999999999999999998743

>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=96.32  E-value=0.0023  Score=47.27  Aligned_cols=26  Identities=23%  Similarity=0.179  Sum_probs=22.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .....|+|.|++||||||+.+.|...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34468999999999999999999764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.32  E-value=0.0026  Score=47.32  Aligned_cols=22  Identities=23%  Similarity=0.182  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|.|++||||||+.+.|..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999865

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.32  E-value=0.0021  Score=49.75  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|+|++|||||||.+.|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999864

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.31  E-value=0.0019  Score=53.28  Aligned_cols=22  Identities=36%  Similarity=0.653  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|+|||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5799999999999999999874

>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=96.31  E-value=0.002  Score=48.42  Aligned_cols=21  Identities=19%  Similarity=0.417  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      +|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999854

>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=96.31  E-value=0.002  Score=52.90  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|+|++|+|||||++.|.+.
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            6899999999999999999763

>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=96.30  E-value=0.0021  Score=47.06  Aligned_cols=23  Identities=26%  Similarity=0.476  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|+++|++||||||+.+.|...
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999998664

>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=96.30  E-value=0.0026  Score=50.79  Aligned_cols=24  Identities=33%  Similarity=0.318  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...|+|+|++|||||||++.|.+.
T Consensus        80 g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999999774

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.29  E-value=0.0057  Score=48.99  Aligned_cols=24  Identities=13%  Similarity=-0.003  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..++|.|+||+|||++++.+....
T Consensus        46 ~~lli~GpPGTGKT~~v~~v~~~L   69 (318)
T 3te6_A           46 KLFYITNADDSTKFQLVNDVMDEL   69 (318)
T ss_dssp             CEEEEECCCSHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999997643

>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=96.28  E-value=0.0021  Score=48.40  Aligned_cols=22  Identities=23%  Similarity=0.487  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+++|++||||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999854

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.28  E-value=0.0029  Score=46.31  Aligned_cols=22  Identities=18%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.26  E-value=0.0025  Score=46.25  Aligned_cols=22  Identities=32%  Similarity=0.622  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.|++|+|||+|++.+...
T Consensus        45 ~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           45 NPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998664

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.26  E-value=0.0023  Score=50.06  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=19.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      |+++|++|+|||||++.+.+..
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCcChHHHHHHHHHHHc
Confidence            8999999999999999998643

>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=96.25  E-value=0.0025  Score=46.38  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++|+||||+.+.|..
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            4689999999999999999864

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.24  E-value=0.0023  Score=51.58  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+..
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Confidence            48999999999999999997643

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.24  E-value=0.0011  Score=53.93  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998754

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.22  E-value=0.0024  Score=49.38  Aligned_cols=25  Identities=20%  Similarity=0.304  Sum_probs=21.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .....|+++|++||||||+.+.|..
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3346899999999999999999865

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.21  E-value=0.003  Score=48.82  Aligned_cols=21  Identities=33%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~   37 (222)
                      ..|+|+|++||||||+++.|.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999997

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.21  E-value=0.0035  Score=47.69  Aligned_cols=24  Identities=25%  Similarity=0.573  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.-|+|.|+.|||||||++.|.+.
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            357899999999999999998775

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.21  E-value=0.003  Score=46.99  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..-|+|+|++|+|||||++.|.+
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999875

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.20  E-value=0.0024  Score=53.18  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -|+|+|++|||||||++.+++..
T Consensus       169 ii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhhc
Confidence            58999999999999999998743

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.19  E-value=0.0026  Score=46.28  Aligned_cols=21  Identities=29%  Similarity=0.303  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -.+|+|+.|+|||||++++..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999865

>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=96.18  E-value=0.003  Score=45.82  Aligned_cols=23  Identities=17%  Similarity=0.364  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+.++|++|+|||||+.+|...
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999999763

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.16  E-value=0.0033  Score=45.00  Aligned_cols=21  Identities=38%  Similarity=0.450  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999865

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.16  E-value=0.0029  Score=47.71  Aligned_cols=22  Identities=18%  Similarity=0.374  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|+|++|+|||||++.+.+.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4788999999999999999754

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.12  E-value=0.0044  Score=45.28  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...|++.|.+|+||||+++.|...
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            457899999999999999998653

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.12  E-value=0.0032  Score=47.65  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|.|++||||||+.+.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.11  E-value=0.0027  Score=47.83  Aligned_cols=23  Identities=17%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ...|++.|++||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999854

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.09  E-value=0.045  Score=43.41  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|+|.|++|+|||++++.+...
T Consensus        26 ~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A           26 ATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             SCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CcEEEECCCCchHHHHHHHHHHh
Confidence            36899999999999999998763

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.08  E-value=0.0031  Score=47.70  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999854

>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=96.08  E-value=0.0034  Score=46.48  Aligned_cols=23  Identities=22%  Similarity=0.154  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|+|.|++||||||+.+.|...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            46999999999999999999764

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.08  E-value=0.0029  Score=54.09  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|||||||++.|++.-
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999998744

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.08  E-value=0.0032  Score=51.37  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      --|+++|++||||||+++.|.+
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHh
Confidence            4689999999999999999965

>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=96.06  E-value=0.0012  Score=49.33  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|.|++||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999865

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.06  E-value=0.0034  Score=48.45  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|++.|++|+|||+|++++.+.
T Consensus        47 ~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            5999999999999999999764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.06  E-value=0.0028  Score=53.43  Aligned_cols=22  Identities=32%  Similarity=0.570  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|++|+|||||++.|.+-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            6899999999999999999774

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.05  E-value=0.0032  Score=46.20  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999864

>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=96.05  E-value=0.0042  Score=45.38  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999864

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.04  E-value=0.0034  Score=47.36  Aligned_cols=22  Identities=27%  Similarity=0.372  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|+|++||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999854

>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=96.01  E-value=0.0039  Score=44.81  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+|.|++||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999864

>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=96.00  E-value=0.0044  Score=48.11  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|.+||||||+.+.|..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4789999999999999999865

>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=96.00  E-value=0.004  Score=45.20  Aligned_cols=22  Identities=18%  Similarity=0.264  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|.+||||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999866

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.00  E-value=0.0037  Score=50.78  Aligned_cols=23  Identities=39%  Similarity=0.505  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +++|+|++|+|||||++.+.+..
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999998864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.99  E-value=0.0039  Score=45.85  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999865

>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=95.99  E-value=0.0036  Score=53.07  Aligned_cols=93  Identities=13%  Similarity=0.029  Sum_probs=49.9

Q ss_pred             EEEEEEeCCCcchhhhh-------HHHhh-----cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           65 VKAQIWDTAGQERFRAV-------TSAYY-----RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~-------~~~~~-----~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      +.+.++||+|.......       +....     ...+-+++|+|+..++.--.   ....+....  ++ ..+|+||.|
T Consensus       376 ~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~al~---~ak~f~~~~--~i-tgvIlTKLD  449 (503)
T 2yhs_A          376 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVS---QAKLFHEAV--GL-TGITLTKLD  449 (503)
T ss_dssp             CSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHHHHH---HHHHHHHHT--CC-SEEEEECGG
T ss_pred             CCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHHHHH---HHHHHHhhc--CC-CEEEEEcCC
Confidence            34678999996432211       11111     12567899999877643111   122222221  12 368899998


Q ss_pred             CCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481          133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus       133 l~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      -.  ....  .+..+....+.++..+.  +|.+++++
T Consensus       450 ~t--akgG--~~lsi~~~~~~PI~fig--~Ge~vdDL  480 (503)
T 2yhs_A          450 GT--AKGG--VIFSVADQFGIPIRYIG--VGERIEDL  480 (503)
T ss_dssp             GC--SCCT--HHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             Cc--cccc--HHHHHHHHHCCCEEEEe--cCCChhhc
Confidence            53  2222  34556667787766543  45556553

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.98  E-value=0.0039  Score=45.62  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999865

>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=95.97  E-value=0.0035  Score=49.51  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            47899999999999999987654

>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=95.96  E-value=0.0041  Score=45.31  Aligned_cols=21  Identities=38%  Similarity=0.551  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+|.|++||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.96  E-value=0.0037  Score=46.57  Aligned_cols=22  Identities=27%  Similarity=0.120  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|.|.+||||||+.+.|..
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4799999999999999999865

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.94  E-value=0.0043  Score=45.94  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..+++.|++|+|||+|++++....
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999987643

>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=95.92  E-value=0.0043  Score=46.89  Aligned_cols=23  Identities=17%  Similarity=0.297  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.+++.|++|+|||+|++.+...
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998653

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.92  E-value=0.0039  Score=49.95  Aligned_cols=25  Identities=20%  Similarity=0.321  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..-++|+|+.|+|||||++.|.+..
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc
Confidence            3467899999999999999999753

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.91  E-value=0.006  Score=52.52  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.|.+..
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998854

>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=95.90  E-value=0.004  Score=46.42  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|.|++||||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999865

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.89  E-value=0.0052  Score=43.53  Aligned_cols=19  Identities=42%  Similarity=0.593  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 040481           19 IVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~   37 (222)
                      .+|+|+.|+||||++.++.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4789999999999999985

>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=95.89  E-value=0.0046  Score=47.00  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|+|++|+|||||+..+.+.
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            5789999999999999999874

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=95.89  E-value=0.0036  Score=45.23  Aligned_cols=22  Identities=27%  Similarity=0.578  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.|++|+|||+|++.+...
T Consensus        45 ~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           45 NPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHHH
Confidence            5799999999999999988654

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.88  E-value=0.0043  Score=52.56  Aligned_cols=21  Identities=19%  Similarity=0.414  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .++|+|++|+|||||++.|.+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            578999999999999999966

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.88  E-value=0.0063  Score=46.00  Aligned_cols=21  Identities=19%  Similarity=0.430  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|+|+|||||+|....|..
T Consensus        31 iI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            357789999999999998854

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=95.87  E-value=0.016  Score=48.63  Aligned_cols=24  Identities=21%  Similarity=0.241  Sum_probs=20.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHh
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~   37 (222)
                      .+..-|.|+|+.++|||+|+|.|+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHH
T ss_pred             CceEEEEEECCCCCchhHHHHHHH
Confidence            456677899999999999999664

>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=95.87  E-value=0.0047  Score=46.15  Aligned_cols=21  Identities=24%  Similarity=0.224  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -++++|++|+|||||+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            579999999999999999987

>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=95.86  E-value=0.0044  Score=47.16  Aligned_cols=22  Identities=23%  Similarity=0.516  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999854

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.86  E-value=0.0032  Score=45.72  Aligned_cols=22  Identities=27%  Similarity=0.197  Sum_probs=15.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.85  E-value=0.0057  Score=52.65  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|+.|+|||||++.|.+..
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999998854

>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=95.84  E-value=0.006  Score=45.79  Aligned_cols=22  Identities=23%  Similarity=0.507  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      +.|+|.|++||||||+.+.|..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999965

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.82  E-value=0.022  Score=46.79  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|+|.|++|+|||+|++++...
T Consensus       149 ~~vLL~GppGtGKT~la~aia~~  171 (389)
T 3vfd_A          149 RGLLLFGPPGNGKTMLAKAVAAE  171 (389)
T ss_dssp             SEEEEESSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999999654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.79  E-value=0.0062  Score=43.65  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      -.|+|.|.+||||||+.+.|..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999854

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.78  E-value=0.0066  Score=53.01  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            58999999999999999998754

>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=95.78  E-value=0.0054  Score=45.86  Aligned_cols=22  Identities=36%  Similarity=0.413  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .-|++.|++|+||||+.+.|..
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999865

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.77  E-value=0.0053  Score=47.46  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+|+|++|+||||+.+.|..
T Consensus        50 ~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           50 SMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999865

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=95.77  E-value=0.0048  Score=53.61  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhcc
Confidence            68999999999999999987743

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.76  E-value=0.0052  Score=50.47  Aligned_cols=21  Identities=19%  Similarity=0.222  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .++++|++|+|||||++.|.+
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            688999999999999999986

>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=95.74  E-value=0.0054  Score=46.89  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .+.|+|.|++|+||||+.+.|..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999864

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.73  E-value=0.0055  Score=53.25  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999998754

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.73  E-value=0.0054  Score=51.40  Aligned_cols=23  Identities=39%  Similarity=0.498  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +++|+|++|+|||||++.+.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            78999999999999999998764

>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=95.70  E-value=0.0061  Score=46.41  Aligned_cols=25  Identities=16%  Similarity=0.206  Sum_probs=21.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .-.-|++.|++||||||+++.|...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3457899999999999999998664

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.68  E-value=0.0057  Score=48.13  Aligned_cols=23  Identities=22%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+++.|++|+|||+|++++...
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            47899999999999999999763

>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=95.65  E-value=0.0086  Score=44.31  Aligned_cols=26  Identities=19%  Similarity=0.213  Sum_probs=22.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .....|++.|.+||||||+.+.|...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            34578999999999999999998653

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.63  E-value=0.0083  Score=52.37  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            68999999999999999998754

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.63  E-value=0.0062  Score=47.58  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+++.|++|+|||+|++++...
T Consensus        52 ~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35999999999999999999764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.63  E-value=0.0048  Score=46.17  Aligned_cols=21  Identities=24%  Similarity=0.343  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .+++.||||+|||+++.++..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999988865

>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=95.63  E-value=0.0067  Score=46.68  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..|++.|++|+|||+|++++...
T Consensus        40 ~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999763

>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=95.59  E-value=0.0073  Score=47.46  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=20.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~   37 (222)
                      ..+.|+|.|++||||||+.+.|.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999999986

>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=95.58  E-value=0.007  Score=45.47  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|.|++|+|||+|++.+...
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999998653

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.58  E-value=0.0067  Score=48.10  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|++.|++|+|||+|++++.+.
T Consensus        51 ~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           51 GVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCcCHHHHHHHHHHH
Confidence            5899999999999999999764

>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=95.57  E-value=0.0072  Score=47.69  Aligned_cols=22  Identities=27%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|++.|++||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999975

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.57  E-value=0.0064  Score=52.32  Aligned_cols=23  Identities=22%  Similarity=0.336  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+..
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998754

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.57  E-value=0.0075  Score=51.92  Aligned_cols=23  Identities=30%  Similarity=0.484  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|+.|+|||||++.|.+..
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998854

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.55  E-value=0.0056  Score=53.39  Aligned_cols=23  Identities=22%  Similarity=0.472  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+-.
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            68999999999999999987643

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.53  E-value=0.0049  Score=53.56  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+-.
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            68999999999999999887643

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.52  E-value=0.0079  Score=52.53  Aligned_cols=23  Identities=30%  Similarity=0.484  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|+.|+|||||++.|.+..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998854

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.49  E-value=0.0071  Score=47.80  Aligned_cols=25  Identities=24%  Similarity=0.122  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..-+++.|+||+|||+|++++....
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3467788999999999999987643

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.47  E-value=0.011  Score=46.81  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=21.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +.-.+++.|++|+|||++++.+....
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHHH
Confidence            33479999999999999999987643

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.47  E-value=0.012  Score=45.77  Aligned_cols=26  Identities=23%  Similarity=0.400  Sum_probs=22.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .....+++.|++|+|||+|++++...
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            34468999999999999999999764

>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=95.46  E-value=0.0077  Score=48.13  Aligned_cols=22  Identities=32%  Similarity=0.501  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.|++|+|||+|++.+.+.
T Consensus        39 ~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999998764

>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=95.44  E-value=0.0075  Score=47.19  Aligned_cols=21  Identities=24%  Similarity=0.229  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -++|+|++|+|||||+..+.+
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999999876

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.44  E-value=0.0069  Score=46.97  Aligned_cols=27  Identities=30%  Similarity=0.331  Sum_probs=21.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+...|+|.|.+||||||+++.|...
T Consensus        21 ~~~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           21 GTRIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             --CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             ccCceEEEEECCCCCCHHHHHHHHHHh
Confidence            344568999999999999999988653

>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=95.44  E-value=0.038  Score=40.64  Aligned_cols=85  Identities=14%  Similarity=-0.053  Sum_probs=55.2

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCHH
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS--DTTVARMLVGNKCDLESIRNVSTE  142 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~iiv~nK~Dl~~~~~~~~~  142 (222)
                      +.+.++|+|+..  .......+..+|.+|+++..+...  ..+...+..+....  ....++.+|+|+.|....   ...
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~---~~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT---MLN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE---EEH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch---HHH
Confidence            567799999865  334455667799999999886554  55666666665543  245677899999985321   223


Q ss_pred             HHHHHHHHcCCeEE
Q 040481          143 EGKSLAEAEGLFFM  156 (222)
Q Consensus       143 ~~~~~~~~~~~~~~  156 (222)
                      +..++...++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            34455555565544

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.43  E-value=0.0065  Score=52.86  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            68999999999999999987643

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.42  E-value=0.0081  Score=45.75  Aligned_cols=25  Identities=28%  Similarity=0.318  Sum_probs=21.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .....|+|+|++|+||||+.+.|..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3445799999999999999998865

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.38  E-value=0.0086  Score=52.27  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=20.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ++|+|+.|+|||||++.|.+..
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            6999999999999999998864

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.38  E-value=0.01  Score=46.93  Aligned_cols=24  Identities=17%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ....+++.|++|+|||+|++.+..
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999987654

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.35  E-value=0.0093  Score=48.72  Aligned_cols=19  Identities=32%  Similarity=0.518  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 040481           19 IVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~   37 (222)
                      .+|+|+.|+|||||++++.
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4589999999999999986

>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=95.26  E-value=0.011  Score=43.97  Aligned_cols=24  Identities=33%  Similarity=0.506  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..|+|+|++|+|||+|...|....
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            468999999999999999997654

>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=95.23  E-value=0.0021  Score=48.91  Aligned_cols=21  Identities=29%  Similarity=0.219  Sum_probs=17.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -+++.|++|+||||++-.+..
T Consensus        14 i~litG~mGsGKTT~ll~~~~   34 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLH   34 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            567789999999998876644

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.23  E-value=0.011  Score=45.01  Aligned_cols=25  Identities=12%  Similarity=0.325  Sum_probs=20.2

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ...+++.++|++||||||+...|..
T Consensus         6 ~~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            6 HHHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             ---CEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccccceeeECCCCCCHHHHHHHHHH
Confidence            3457999999999999999998854

>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=95.23  E-value=0.01  Score=49.32  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .-|+++|++||||||+.++|...
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999998653

>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=95.22  E-value=0.0097  Score=47.17  Aligned_cols=85  Identities=9%  Similarity=0.078  Sum_probs=48.1

Q ss_pred             EEEEEEeCCCcchhhhh----HHHhhc--CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040481           65 VKAQIWDTAGQERFRAV----TSAYYR--GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN  138 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~----~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~  138 (222)
                      +.+.++||+|.......    ....+.  ..+.+++|+|++..  ...+..+...+.   ... ..-+|.||.|....  
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~---~l~-~~giVltk~D~~~~--  254 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFS---SVP-VNQYIFTKIDETTS--  254 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTS---SSC-CCEEEEECTTTCSC--
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHh---cCC-CCEEEEeCCCcccc--
Confidence            45779999996543321    112332  35788999988754  233333333222   112 22466799997532  


Q ss_pred             CCHHHHHHHHHHcCCeEEEEc
Q 040481          139 VSTEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~s  159 (222)
                        ...+.......+.++..+.
T Consensus       255 --~g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          255 --LGSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             --CHHHHHHHHTCSCCCSEEC
T ss_pred             --hhHHHHHHHHHCcCEEEEE
Confidence              2255567777888765544

>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=95.21  E-value=0.011  Score=46.60  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+++.|++|+|||+|++++...
T Consensus        51 ~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998653

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.18  E-value=0.13  Score=40.76  Aligned_cols=21  Identities=14%  Similarity=0.268  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++-|++|+|||++++++...
T Consensus        51 ~L~~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHH
T ss_pred             EEeeCcCCCCHHHHHHHHHHH
Confidence            455677999999999999654

>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=95.17  E-value=0.01  Score=48.16  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|.|++|+|||||++.+.+.
T Consensus        47 ~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           47 NIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998763

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.16  E-value=0.011  Score=49.28  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      --|++.||||+|||+|++++.+.
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999999764

>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=95.15  E-value=0.013  Score=43.24  Aligned_cols=21  Identities=43%  Similarity=0.468  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+|.|++||||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999865

>1sxj_C Activator 1 40 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=95.13  E-value=0.011  Score=47.55  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +++.|++|+||||+++.+.+.-
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999997653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.09  E-value=0.012  Score=49.15  Aligned_cols=24  Identities=21%  Similarity=0.213  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .-.|++.||||+|||.|++++.+.
T Consensus       215 prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          215 PKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeeEEECcCCCCHHHHHHHHHHH
Confidence            347999999999999999999764

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=95.08  E-value=0.014  Score=43.52  Aligned_cols=20  Identities=40%  Similarity=0.529  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 040481           18 KIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~   37 (222)
                      -.+|+|+.|+||||++.++.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            34788999999999999884

>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=95.06  E-value=0.013  Score=46.70  Aligned_cols=92  Identities=15%  Similarity=0.104  Sum_probs=50.5

Q ss_pred             EEEEEEeCCCcchhhhhH-------HHhh-----cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           65 VKAQIWDTAGQERFRAVT-------SAYY-----RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~-------~~~~-----~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                      +.+.++|+||........       ...+     ..++.+++|+|+..++  +.+.. ...+....  + ..-+|+||.|
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~~--~~l~~-a~~~~~~~--~-i~gvVlTk~D  260 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQ--NGLVQ-AKIFKEAV--N-VTGIILTKLD  260 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHH--HHHHH-HHHHHHHS--C-CCEEEEECGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCH--HHHHH-HHHHHhcC--C-CCEEEEeCCC
Confidence            346799999953222111       1111     2478899999997542  22222 12222221  1 2357789999


Q ss_pred             CCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       133 l~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      ...  ..  -.+.......+.|+..+..  |+.+++
T Consensus       261 ~~~--~g--G~~l~~~~~~~~Pi~~i~~--Ge~~~d  290 (306)
T 1vma_A          261 GTA--KG--GITLAIARELGIPIKFIGV--GEKAED  290 (306)
T ss_dssp             GCS--CT--THHHHHHHHHCCCEEEEEC--SSSGGG
T ss_pred             Ccc--ch--HHHHHHHHHHCCCEEEEeC--CCChhh
Confidence            642  22  2366677888888776653  344544

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=95.05  E-value=0.0018  Score=49.43  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARNEF   41 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~~   41 (222)
                      ++|+|++|+|||||++++.+...
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcccc
Confidence            46889999999999999977543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.04  E-value=0.016  Score=47.06  Aligned_cols=22  Identities=18%  Similarity=0.502  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .+|+++|++|+||||+.+.|..
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            5799999999999999988754

>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=95.03  E-value=0.012  Score=47.85  Aligned_cols=23  Identities=22%  Similarity=0.237  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -+.|+|++|+|||||++.+.+..
T Consensus       133 i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          133 ITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998753

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.03  E-value=0.013  Score=46.95  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|+|++|||||||...|..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999865

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.01  E-value=0.013  Score=48.98  Aligned_cols=24  Identities=21%  Similarity=0.264  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .--|++.||||+|||+|++++.+.
T Consensus       215 prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          215 PKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            347999999999999999999764

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.00  E-value=0.013  Score=46.90  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...|++.|++|+|||+|++++...
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            357999999999999999999754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.00  E-value=0.013  Score=44.44  Aligned_cols=21  Identities=14%  Similarity=0.385  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -++|+|++|+|||||+..+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999877754

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.98  E-value=0.015  Score=53.32  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF   41 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~   41 (222)
                      .++|+|+.|+|||||++.|.++..
T Consensus       463 ~v~LiGpNGsGKSTLLk~LagG~i  486 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIANGQV  486 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            579999999999999999997544

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.97  E-value=0.014  Score=47.08  Aligned_cols=22  Identities=45%  Similarity=0.681  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .-|+|+|++|||||||...|..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4689999999999999998864

>1sxj_D Activator 1 41 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=94.92  E-value=0.014  Score=46.86  Aligned_cols=21  Identities=14%  Similarity=0.423  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++.|++|+|||++++.+...
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998764

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=94.89  E-value=0.03  Score=42.45  Aligned_cols=26  Identities=8%  Similarity=-0.051  Sum_probs=19.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..+=|++.|+++.||++|++++.+..
T Consensus        28 nkilvl~~~~~~~~~~~~~~~lf~~~   53 (233)
T 3uc9_A           28 NKILVLSDHPHNFLKTQFLQDLFHCS   53 (233)
T ss_dssp             CEEEEEEEGGGHHHHHHHHHHHHCCC
T ss_pred             CceEEEecCcccccHHHHHHHHhccc
Confidence            33444444999999999999998874

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=94.89  E-value=0.0066  Score=47.01  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.|++|+|||+|++++...
T Consensus        46 ~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            3889999999999999999764

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.87  E-value=0.015  Score=48.05  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      --|++.||||+|||.|++++.+.
T Consensus       183 rGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          183 KGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CCEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEeCCCCCCHHHHHHHHHHh
Confidence            46899999999999999999764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=94.83  E-value=0.015  Score=49.60  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+++|++|+|||+|++++.+.
T Consensus        66 GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999999764

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=94.82  E-value=0.015  Score=50.18  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+..
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            68999999999999999987643

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.81  E-value=0.0087  Score=54.89  Aligned_cols=23  Identities=30%  Similarity=0.540  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|+.|+|||||++.|.+..
T Consensus       701 ivaIiGpNGSGKSTLLklLaGll  723 (986)
T 2iw3_A          701 RIAVIGPNGAGKSTLINVLTGEL  723 (986)
T ss_dssp             EEEECSCCCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998754

>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=94.80  E-value=0.017  Score=46.07  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+|+||+|||||+|...|...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            5789999999999999999653

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.80  E-value=0.018  Score=46.42  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+|+|++|||||||...|...
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.79  E-value=0.018  Score=45.86  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+++.|++|+|||+|+.++...
T Consensus       153 ~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999998653

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.76  E-value=0.014  Score=47.35  Aligned_cols=23  Identities=17%  Similarity=0.257  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.++|.|++|+|||+|++.+...
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999998753

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=94.74  E-value=0.015  Score=47.08  Aligned_cols=23  Identities=22%  Similarity=0.385  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.+++.|++|+|||+|++++...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999998654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=94.74  E-value=0.017  Score=48.93  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+++|++|+|||+|++++.+.
T Consensus        51 gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999763

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=94.70  E-value=0.017  Score=46.89  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.|++.|++|+|||+|++++...
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Confidence            36899999999999999999764

>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=94.69  E-value=0.017  Score=48.44  Aligned_cols=23  Identities=26%  Similarity=0.431  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      --+++.|++|+|||+|++++.+.
T Consensus       131 ~~lll~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          131 NPLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999998753

---

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	222
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-55
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-52
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-51
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	6e-51
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	2e-50
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-49
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	5e-49
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-47
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-47
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	2e-45
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	4e-45
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-44
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	5e-43
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	1e-40
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-40
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-39
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	4e-39
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	1e-37
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	9e-37
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-36
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	4e-36
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	6e-36
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	1e-35
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	7e-35
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	7e-35
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	2e-34
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	4e-34
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-33
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	9e-33
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	3e-32
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	5e-32
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	4e-31
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	7e-31
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	8e-30
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-29
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-29
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	3e-29
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-28
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	3e-28
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	5e-27
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	2e-26
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-26
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	1e-25
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	7e-25
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	1e-24
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-24
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-24
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	2e-24
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-22
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	4e-22
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-21
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-20
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	6e-18
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	8e-18
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	7e-17
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	6e-14
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-10
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	1e-08
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	4e-05
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	6e-05
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	2e-04
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	4e-04
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	5e-04
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	6e-04
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	0.004

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

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]

 Score =  172 bits (437), Expect = 2e-55
 Identities = 81/170 (47%), Positives = 124/170 (72%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+++IGDS VGK+ +L R++ + FN    +TIG++F+ +++E+DGK +K QIWDTA
Sbjct: 4   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 63

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +T+AYYRGA+G ++VYDIT   +FD+I  W+  ++ H+   V +M++GNKCD+
Sbjct: 64  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 123

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
              R VS E G+ LA   G+ FMETSA  + NV++AF  + R+I + + +
Sbjct: 124 NDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

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]

 Score =  165 bits (418), Expect = 2e-52
 Identities = 88/181 (48%), Positives = 132/181 (72%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+++IG+S VGKS LL R++ + +     +TIGV+F+ +++E+DGK VK QIWDTA
Sbjct: 4   DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTA 63

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR +TS+YYRG+ G +IVYD+T + +F+ +  WL E+  ++ +TV ++LVGNKCDL
Sbjct: 64  GQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL 123

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSDSYKA 193
           +  R V  +  K  A+A  + F+ETSALDSTNV+ AF  + R+I  ++S++ LN  + K 
Sbjct: 124 KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKK 183

Query: 194 E 194
           E
Sbjct: 184 E 184

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

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]

 Score =  162 bits (411), Expect = 2e-51
 Identities = 107/171 (62%), Positives = 139/171 (81%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +YLFK+V+IGDS VGKSNLLSR+ RNEFN  SK+TIGVEF T+S+++DGK +KAQIWDTA
Sbjct: 2   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 61

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+R +TSAYYRGAVGAL+VYDI +  T++++ RWL EL+ H+D+ +  MLVGNK DL
Sbjct: 62  GQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 121

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
             +R V T+E ++ AE   L F+ETSALDSTNV+ AF+ ++ EIY  VS+K
Sbjct: 122 RHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQK 172

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

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]

 Score =  161 bits (407), Expect = 6e-51
 Identities = 76/166 (45%), Positives = 116/166 (69%), Gaps = 1/166 (0%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           + KI++IGDS VGKS LL R+  ++FNP    TIG++F+ ++++I+GK+VK QIWDTAGQ
Sbjct: 2   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 61

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES 135
           ERFR +T+AYYRGA+G ++VYDIT   TF +I +W   +  H++     +LVGNK D+E 
Sbjct: 62  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME- 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
            R V+ ++G++LA+  G+ F+E+SA +  NV   F  + + I   +
Sbjct: 121 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 166

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

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]

 Score =  159 bits (403), Expect = 2e-50
 Identities = 84/164 (51%), Positives = 114/164 (69%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y+FK +IIGD  VGKS LL ++   +F      TIGVEF T+ +E+ G+++K QIWDTAG
Sbjct: 3   YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG 62

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERFRAVT +YYRGA GAL+VYDITRR+T++ +S WL + +  ++     +L+GNK DLE
Sbjct: 63  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE 122

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
           + R+V+ EE K  AE  GL F+E SA    NV+ AF    ++IY
Sbjct: 123 AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY 166

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score =  156 bits (396), Expect = 2e-49
 Identities = 72/167 (43%), Positives = 112/167 (67%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFKIV+IG++ VGK+ L+ R+ +  F P   ATIGV+F  +++EI+G++VK QIWDTA
Sbjct: 3   DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTA 62

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR++T +YYR A   ++ YDIT   +F  +  WL E++ ++   V  +LVGNK DL
Sbjct: 63  GQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDL 122

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
              R VS +  +  +EA+ ++++ETSA +S NV+  F  +   + S 
Sbjct: 123 AERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE 169

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  156 bits (394), Expect = 5e-49
 Identities = 74/166 (44%), Positives = 110/166 (66%), Gaps = 1/166 (0%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDT 72
           +  FK++++GDS VGK+ LL R+    F   +  +T+G++F+ + +++DG +VK Q+WDT
Sbjct: 4   DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDT 63

Query: 73  AGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD 132
           AGQERFR+VT AYYR A   L++YD+T + +FD+I  WL E+  ++   VA ML+GNK D
Sbjct: 64  AGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVD 123

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
               R V  E+G+ LA+  GL FMETSA    NV  AF  + +E+ 
Sbjct: 124 SAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK 169

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

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]

 Score =  151 bits (383), Expect = 2e-47
 Identities = 90/171 (52%), Positives = 120/171 (70%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           YLFK +IIGD+ VGKS LL ++    F P    TIGVEF  + + IDGK++K QIWDTAG
Sbjct: 2   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QE FR++T +YYRGA GAL+VYDITRR TF+ ++ WL++ + HS + +  ML+GNK DLE
Sbjct: 62  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 121

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKV 185
           S R+V  EEG++ A   GL FMETSA  + NV+ AF    +EIY  + + +
Sbjct: 122 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 172

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

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]

 Score =  151 bits (382), Expect = 3e-47
 Identities = 77/165 (46%), Positives = 117/165 (70%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           +Y+FKI+IIG+S+VGK++ L RYA + F P   +T+G++F+ +++  + K +K QIWDTA
Sbjct: 3   DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTA 62

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQER+R +T+AYYRGA+G +++YDIT   +F+++  W  ++KT+S      +LVGNKCD+
Sbjct: 63  GQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDM 122

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
           E  R VS+E G+ LA+  G  F E SA D+ NVK  FE ++  I 
Sbjct: 123 EDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVIC 167

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

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]

 Score =  147 bits (371), Expect = 2e-45
 Identities = 63/183 (34%), Positives = 109/183 (59%), Gaps = 11/183 (6%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI----------DGK 63
           +YL K++ +GDS VGK+  L RY  N+FNP    T+G++F+ + +               
Sbjct: 3   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAF 62

Query: 64  EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TV 122
           +V  Q+WDTAGQERFR++T+A++R A+G L+++D+T + +F ++  W+ +L+ ++     
Sbjct: 63  KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENP 122

Query: 123 ARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVS 182
             +L+GNK DL   R V+  + + LA+  G+ + ETSA    NV+ A E ++  I   + 
Sbjct: 123 DIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRME 182

Query: 183 RKV 185
           + V
Sbjct: 183 QCV 185

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

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]

 Score =  146 bits (369), Expect = 4e-45
 Identities = 71/170 (41%), Positives = 103/170 (60%), Gaps = 2/170 (1%)

Query: 13  EEYL--FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW 70
           E+ L   KI+IIG+S VGKS+LL R+  + F+P   ATIGV+F+ +++ +DG + K  IW
Sbjct: 2   EDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIW 61

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK 130
           DTAGQERFR +T +YYRGA G ++VYD+TRR TF  +  WL+EL+T+        ++   
Sbjct: 62  DTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGN 121

Query: 131 CDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
              +  R V   EG   A    + F+E SA     V+ AFE ++ +I   
Sbjct: 122 KIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT 171

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

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]

 Score =  145 bits (365), Expect = 1e-44
 Identities = 76/168 (45%), Positives = 111/168 (66%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
           ++LFK ++IG++  GKS LL ++   +F   S  TIGVEF ++ + + GK VK QIWDTA
Sbjct: 3   DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA 62

Query: 74  GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL 133
           GQERFR+VT +YYRGA GAL+VYDIT R T+++++ WL + +  +   +  +L GNK DL
Sbjct: 63  GQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 122

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNV 181
           ++ R V+  E    A+   L F+ETSAL   NV+ AF    R+I + +
Sbjct: 123 DADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKI 170

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

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]

 Score =  140 bits (354), Expect = 5e-43
 Identities = 65/161 (40%), Positives = 107/161 (66%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V +G+ +VGK++L++R+  + F+   +ATIG++F +++M ++ + ++ Q+WDTAGQE
Sbjct: 1   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFR++  +Y R +  A++VYDIT   +F   ++W+D+++T   + V  MLVGNK DL   
Sbjct: 61  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           R VS EEG+  A+   + F+ETSA    NVK  F  V   +
Sbjct: 121 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score =  135 bits (339), Expect = 1e-40
 Identities = 70/170 (41%), Positives = 105/170 (61%)

Query: 11  GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW 70
           G +   FK+V++G+SAVGKS+L+ R+ + +F+   ++TIG  F TQ++ +D   VK +IW
Sbjct: 1   GNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK 130
           DTAGQER+ ++   YYRGA  A++VYDIT   +F     W+ EL+  +   +   L GNK
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNK 120

Query: 131 CDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
            DL + R V  +E +S A+   L FMETSA  S NV   F  + +++  N
Sbjct: 121 ADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score =  133 bits (336), Expect = 2e-40
 Identities = 66/164 (40%), Positives = 97/164 (59%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y FK+V++G+  VGK++L+ RY  N+FN     T+G  F T+ + I GK V   IWDTAG
Sbjct: 2   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 61

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE 134
           QERF A+   YYR + GA++VYDIT   +F  +  W+ EL+      +   +VGNK DLE
Sbjct: 62  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 121

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
             R+VS +E +S AE+ G     TSA  +  ++  F  + + + 
Sbjct: 122 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 165

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

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]

 Score =  131 bits (331), Expect = 2e-39
 Identities = 69/173 (39%), Positives = 108/173 (62%), Gaps = 6/173 (3%)

Query: 12  GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD 71
           G+  LFK++++GD  VGKS+L++RY  N+F+     TIGVEF  + +E+DG  V  QIWD
Sbjct: 2   GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 61

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT----TVARMLV 127
           TAGQERFR++ + +YRG+   L+ + +    +F ++S W  E   ++D     +   +++
Sbjct: 62  TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 121

Query: 128 GNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREIYS 179
           GNK D+   R VSTEE ++     G   + ETSA D+TNV +AFE  +R + +
Sbjct: 122 GNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 173

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  130 bits (328), Expect = 4e-39
 Identities = 57/163 (34%), Positives = 87/163 (53%), Gaps = 2/163 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++    F      TI  +F  + +E+D      +I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
           +F ++   Y +   G ++VY +  + +F  I    D++        V  +LVGNK DLES
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            R VS+ EG++LAE  G  FMETSA   T V   F  ++R++ 
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 165

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

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: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  127 bits (320), Expect = 1e-37
 Identities = 46/182 (25%), Positives = 79/182 (43%), Gaps = 14/182 (7%)

Query: 11  GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW 70
           G    + K V++GD AVGK+ LL  YA + F      T+  +    S+ + GK+    ++
Sbjct: 4   GPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLY 62

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNK 130
           DTAGQE +  +    Y      LI + +    +F ++              V  +L+G +
Sbjct: 63  DTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQ 122

Query: 131 CDL------------ESIRNVSTEEGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
            DL               + +  E+G+ LA+  G   ++E SAL    +K+ F+  I  I
Sbjct: 123 IDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 182

Query: 178 YS 179
            +
Sbjct: 183 LT 184

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

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: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  125 bits (314), Expect = 9e-37
 Identities = 43/181 (23%), Positives = 76/181 (41%), Gaps = 14/181 (7%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K V++GD AVGK+ LL  Y  N+F      T+  +    ++ I G+     ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
            +  +    Y      L+ + +   ++F+++        TH       +LVG + DL   
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD 122

Query: 137 RNV------------STEEGKSLAEA-EGLFFMETSALDSTNVKSAFEIVIREIYSNVSR 183
            +             + E  + LA   + + ++E SAL    +K+ F+  I         
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEP 182

Query: 184 K 184
           K
Sbjct: 183 K 183

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

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]

 Score =  124 bits (311), Expect = 1e-36
 Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 2/165 (1%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++++G   VGKS L  ++  +EF    + T    ++ + + +DG+EV+  I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGQ 62

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLE 134
           E + A+   Y+R   G L V+ IT   +F + + + ++ L+   D  V  +LVGNK DLE
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
             R VS EE K+ A+   + ++ETSA    NV   F  ++REI +
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA 167

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

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]

 Score =  123 bits (309), Expect = 4e-36
 Identities = 60/178 (33%), Positives = 102/178 (57%), Gaps = 4/178 (2%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L K++I+GDS VGK++L+++Y   +F+   KATIG +F T+ + +D + V  QIWDTAGQ
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 61

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRW----LDELKTHSDTTVARMLVGNKC 131
           ERF+++  A+YRGA   ++V+D+T   TF ++  W    L +           +++GNK 
Sbjct: 62  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 121

Query: 132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVLNSD 189
           DLE+ +  +            + + ETSA ++ NV+ AF+ + R      +   L ++
Sbjct: 122 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNE 179

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

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]

 Score =  122 bits (307), Expect = 6e-36
 Identities = 64/163 (39%), Positives = 100/163 (61%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+ ++GD+ VGKS+++ R+  + F+P+   TIG  F T++++   +  K  IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           RFRA+   YYRG+  A+IVYDIT+  TF ++  W+ EL+ H   ++   + GNKCDL  +
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 124

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
           R V   + K  A++    F+ETSA ++ N+   F  + R I S
Sbjct: 125 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 167

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

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]

 Score =  122 bits (305), Expect = 1e-35
 Identities = 51/165 (30%), Positives = 78/165 (47%), Gaps = 2/165 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
              K+V++G   VGKS L  ++ ++ F          +  T+   +DG   +  I DTAG
Sbjct: 5   ETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDILDTAG 63

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSIS-RWLDELKTHSDTTVARMLVGNKCDL 133
           QE F A+   Y R   G L+V+ I  R +F+ +   +   L+         +LVGNK DL
Sbjct: 64  QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADL 123

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
           ES R V   E  +   +  + + E SA    NV  AFE ++R + 
Sbjct: 124 ESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVR 168

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

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: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  120 bits (301), Expect = 7e-35
 Identities = 48/179 (26%), Positives = 82/179 (45%), Gaps = 14/179 (7%)

Query: 12  GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWD 71
           G     K V++GD AVGK+ LL  Y  N F      T+  +  + ++ +DGK V   +WD
Sbjct: 1   GSPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWD 59

Query: 72  TAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKC 131
           TAGQE +  +    Y     +LI + +    +F+++         H       +LVG K 
Sbjct: 60  TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKL 119

Query: 132 DLESIRNVSTE------------EGKSLAEAEG-LFFMETSALDSTNVKSAFEIVIREI 177
           DL   ++   +            +G ++A+  G + ++E SAL    +K+ F+  IR +
Sbjct: 120 DLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

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]

 Score =  119 bits (299), Expect = 7e-35
 Identities = 69/163 (42%), Positives = 99/163 (60%), Gaps = 3/163 (1%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++G++AVGKS+++ R+  N+F  + + TIG  F TQ + I+   VK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDL---E 134
           F ++   YYR A  AL+VYD+T+  +F     W+ EL   +   +   LVGNK D+    
Sbjct: 65  FASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEG 124

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R V+ EEG+ LAE +GL F ETSA    NV   F  +  +I
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

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]

 Score =  118 bits (296), Expect = 2e-34
 Identities = 57/165 (34%), Positives = 91/165 (55%), Gaps = 3/165 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  +  +N F      TI   ++ Q + IDG+     I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVIDGETCLLDILDTAGQE 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLES 135
            + A+   Y R   G L V+ I    +F+ I ++ +++K   D+  V  +LVGNKCD  +
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD-LA 121

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
            R V + + + LA + G+ ++ETSA     V+ AF  ++REI  +
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score =  117 bits (294), Expect = 4e-34
 Identities = 55/164 (33%), Positives = 89/164 (54%), Gaps = 3/164 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++G   VGKS L  ++ +  F      TI  +   + +E+D ++   +I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLD-ELKTHSDTTVARMLVGNKCDLES 135
           +F A+   Y +   G  +VY IT ++TF+ +    +  L+      V  +LVGNKCDLE 
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 136 IRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            R V  E+G++LA +     F+E+SA    NV   F  ++R+I 
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score =  116 bits (290), Expect = 2e-33
 Identities = 55/163 (33%), Positives = 87/163 (53%), Gaps = 2/163 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++V++G   VGKS L  ++ ++ F      TI  +  T+   ID +  +  I DTAGQE
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQE 64

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLES 135
            F A+   Y R   G L+V+ +T R +F+ I ++  + L+         +L+GNK DL+ 
Sbjct: 65  EFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDH 124

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            R V+ EEG+ LA    + +ME SA    NV  AF  ++R I 
Sbjct: 125 QRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIR 167

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

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]

 Score =  114 bits (285), Expect = 9e-33
 Identities = 65/161 (40%), Positives = 100/161 (62%), Gaps = 5/161 (3%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           +FKI++IGDS VGK+ L  R+    F   ++ATIGV+F+ ++++IDG+ +K Q+WDTAGQ
Sbjct: 2   IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 61

Query: 76  ERF-RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDL 133
           ERF +++   YYR     + VYD+T   +F S+  W++E K H     + R+LVGNKCDL
Sbjct: 62  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 121

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDST---NVKSAFE 171
            S   V T+  +  A+   +   ETSA +     +V++ F 
Sbjct: 122 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFM 162

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

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]

 Score =  113 bits (283), Expect = 3e-32
 Identities = 51/174 (29%), Positives = 79/174 (45%), Gaps = 14/174 (8%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+VI+GD A GK+ LL   ++++F      T+  E     +E+DGK+V+  +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
            +  +    Y      L+ + I    + ++I         H    V  +LVGNK DL + 
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND 121

Query: 137 RNV------------STEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREI 177
            +               EEG+ +A   G F +ME SA     V+  FE+  R  
Sbjct: 122 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAA 175

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

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: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  112 bits (281), Expect = 5e-32
 Identities = 52/176 (29%), Positives = 83/176 (47%), Gaps = 15/176 (8%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           KIV++GDS  GK+ LL  +A++ F  +   T+  E  T S EID + ++  +WDT+G   
Sbjct: 4   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 62

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES-- 135
           +  V    Y  +   LI +DI+R  T DS+ +               +LVG K DL +  
Sbjct: 63  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDV 122

Query: 136 ----------IRNVSTEEGKSLAEAEG-LFFMETSALDSTN-VKSAFEIVIREIYS 179
                        VS ++G ++A+  G   ++E SAL S N V+  F +      +
Sbjct: 123 STLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN 178

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

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]

 Score =  110 bits (274), Expect = 4e-31
 Identities = 56/164 (34%), Positives = 87/164 (53%), Gaps = 3/164 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K+V++GD  VGKS L  ++ +  F P    TI  +   +  EID +     + DTAGQE
Sbjct: 5   YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTI-EDSYLKHTEIDNQWAILDVLDTAGQE 63

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLD-ELKTHSDTTVARMLVGNKCDLES 135
            F A+   Y R   G LIVY +T + +F+ + R+    L+     +   +LV NK DL  
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 123

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEIVIREIY 178
           +R V+ ++GK +A    + ++ETSA D   NV   F  ++R I 
Sbjct: 124 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIR 167

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

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]

 Score =  109 bits (273), Expect = 7e-31
 Identities = 63/172 (36%), Positives = 103/172 (59%), Gaps = 7/172 (4%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEV-KAQIWDTAG 74
           + K++I+GDS VGK++L+ RY  ++++   KATIG +F T+ + +DG +V   Q+WDTAG
Sbjct: 2   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 75  QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTH----SDTTVARMLVGNK 130
           QERF+++  A+YRGA   ++VYD+T  ++F++I  W DE   H    S  T   +++GNK
Sbjct: 62  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 121

Query: 131 CDLESIRNVSTEEGKSLAEAE--GLFFMETSALDSTNVKSAFEIVIREIYSN 180
            D E  + + +E+           +    TSA ++ NV +AFE + R     
Sbjct: 122 IDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ 173

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

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]

 Score =  106 bits (265), Expect = 8e-30
 Identities = 58/161 (36%), Positives = 94/161 (58%), Gaps = 1/161 (0%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K+V++G+ AVGKS+++ RY +  F    K TIGV+F  + ++++ ++V+  +WDTAGQE 
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 63

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR 137
           F A+T AYYRGA   ++V+  T R +F++IS W +++       +   LV NK DL    
Sbjct: 64  FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDS 122

Query: 138 NVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIY 178
            +  EE + LA+   L F  TS  +  NV   F+ +  +  
Sbjct: 123 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL 163

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

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), ARF6 [TaxId: 9606]

 Score =  106 bits (265), Expect = 1e-29
 Identities = 33/165 (20%), Positives = 62/165 (37%), Gaps = 9/165 (5%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+++G  A GK+ +L +    +    +  T+G   +T +     K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 67

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR-MLVGNKCDLE- 134
           + R +   YY G  G + V D   R   D   + L  +    +   A  ++  NK DL  
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127

Query: 135 --SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
                 +  + G +       +   + A     +      +    
Sbjct: 128 AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score =  105 bits (263), Expect = 2e-29
 Identities = 46/163 (28%), Positives = 75/163 (46%), Gaps = 3/163 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +++ + G   VGKS+L+ R+ +  F      T+  +   Q +  D      QI DT G  
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTV-EDTYRQVISCDKSICTLQITDTTGSH 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR--MLVGNKCDLE 134
           +F A+           ++VY IT R + + +    +++        +   MLVGNKCD  
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

Query: 135 SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             R V + E ++LA      FMETSA  + NVK  F+ ++   
Sbjct: 122 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE 164

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score =  105 bits (262), Expect = 3e-29
 Identities = 46/164 (28%), Positives = 81/164 (49%), Gaps = 3/164 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           FK+V++GD   GK+  + R+   EF     AT+GVE        +   +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
           +F  +   YY  A  A+I++D+T R T+ ++  W  +L    +     +L GNK D++  
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIP-IVLCGNKVDIKDR 122

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
           +     +       + L + + SA  + N +  F  + R++  +
Sbjct: 123 K--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD 164

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

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]

 Score =  103 bits (257), Expect = 1e-28
 Identities = 26/164 (15%), Positives = 59/164 (35%), Gaps = 9/164 (5%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           +I+++G  A GK+ +L +    E       T           ++ K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIV-----TTIPTIGFNVETVEYKNISFTVWDVGGQDK 56

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV----GNKCDL 133
            R +   Y++   G + V D   R   +     L  +    +   A +LV     +  + 
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            +   ++ + G         +   T A     +    + +  ++
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

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]

 Score =  103 bits (256), Expect = 3e-28
 Identities = 40/165 (24%), Positives = 63/165 (38%), Gaps = 9/165 (5%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+I+G    GK+ +L R    E     K TIG   +T    +  K +K  +WD  GQ 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTT-KPTIGFNVET----LSYKNLKLNVWDLGGQT 72

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARML-VGNKCDLE- 134
             R     YY      + V D T +    + S+ L  +    +   A +L   NK D   
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG 132

Query: 135 --SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             S   VS E      +      + +SA+    +    + +I  I
Sbjct: 133 ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 177

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 99.4 bits (246), Expect = 5e-27
 Identities = 53/162 (32%), Positives = 82/162 (50%), Gaps = 2/162 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            KI I+G  +VGKS+L  ++   +F      TI     T+ + ++G+E   Q+ DTAGQ+
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI-ENTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKCDLES 135
            +      Y     G ++VY +T   +F+ I     +L        +  MLVGNK DL  
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 123

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
            R +S EEGK+LAE+    F+E+SA ++      F  +I E 
Sbjct: 124 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEA 165

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

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]

 Score = 98.5 bits (244), Expect = 2e-26
 Identities = 56/164 (34%), Positives = 76/164 (46%), Gaps = 4/164 (2%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+ I G + VGKS L+ R+    F      T+          ID + V  +I DTAGQE
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTL-ESTYRHQATIDDEVVSMEILDTAGQE 61

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLES 135
                   + R   G ++VYDIT R +F+ +    + L        V  +LVGNK DL+ 
Sbjct: 62  DTI-QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDH 120

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEIVIREIY 178
            R VSTEEG+ LA      F E SA     N+   F  + RE+ 
Sbjct: 121 SRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVR 164

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

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]

 Score = 97.9 bits (242), Expect = 2e-26
 Identities = 49/169 (28%), Positives = 80/169 (47%), Gaps = 3/169 (1%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
           +K++++G   VGKS L   +   E  P +          +S+ +DG+E    ++D   Q+
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVEDGPEA--EAAGHTYDRSIVVDGEEASLMVYDIWEQD 59

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRW-LDELKTHSDTTVARMLVGNKCDLES 135
             R +           +IVY +T + +F+  S   +   +      V  +LVGNK DL  
Sbjct: 60  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 119

Query: 136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRK 184
            R VS +EG++ A      F+ETSA    NV++ FE V+R+I      K
Sbjct: 120 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSK 168

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

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]

 Score = 96.2 bits (238), Expect = 1e-25
 Identities = 32/165 (19%), Positives = 62/165 (37%), Gaps = 9/165 (5%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K++I+G    GK+ +L +++ NE              +   EI     +  +WD  GQE
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEV-----VHTSPTIGSNVEEIVINNTRFLMWDIGGQE 70

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLE- 134
             R+  + YY      ++V D T R         L ++  H D      ++  NK D++ 
Sbjct: 71  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 130

Query: 135 --SIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             ++  +S     +  +          AL    +    E ++  +
Sbjct: 131 CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

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]

 Score = 94.3 bits (233), Expect = 7e-25
 Identities = 33/171 (19%), Positives = 61/171 (35%), Gaps = 9/171 (5%)

Query: 11  GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIW 70
              +   +I+++G    GK+ LL + A  + +  +  T G   ++       +  K  +W
Sbjct: 11  SAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITP-TQGFNIKSVQS----QGFKLNVW 65

Query: 71  DTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGN 129
           D  GQ + R    +Y+      + V D   R  F+   + L EL      + V  ++  N
Sbjct: 66  DIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFAN 125

Query: 130 KCDL---ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           K DL        ++                  SAL    V+     V + +
Sbjct: 126 KQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

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: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 93.9 bits (232), Expect = 1e-24
 Identities = 33/173 (19%), Positives = 65/173 (37%), Gaps = 7/173 (4%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            ++ ++GD+  GKS+L+ R+    +          E   + M +DG+     I + AG  
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQVLE--KTESEQYKKEMLVDGQTHLVLIREEAGAP 63

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD--LE 134
             +          +    + D         +   L  L+      +A  LVG +      
Sbjct: 64  DAKFSGW--ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISAS 121

Query: 135 SIRNVSTEEGKSLA-EAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKVL 186
           S R V     ++L  + +   + ET A    NV   F+ V +++ +   ++ L
Sbjct: 122 SPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQL 174

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

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]

 Score = 93.2 bits (230), Expect = 1e-24
 Identities = 29/167 (17%), Positives = 58/167 (34%), Gaps = 9/167 (5%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +++++G    GK+ +L ++   +       TI          ++ +  K  IWD  GQ+
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDV-----DTISPTLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
             R+    Y+    G + V D   R       R L  L           ++  NK DL  
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 117

Query: 136 IRNVST---EEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
             + +            +        SA+   ++    + ++ +I S
Sbjct: 118 ALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS 164

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

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: Mouse (Mus musculus) [TaxId: 10090]

 Score = 93.8 bits (232), Expect = 2e-24
 Identities = 28/201 (13%), Positives = 59/201 (29%), Gaps = 43/201 (21%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K++++G    GKS  + +      +     T G+         D + V  ++ D  GQ 
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHGSG--VPTTGIIEYP----FDLQSVIFRMVDVGGQR 56

Query: 77  RFRAVTSAYYRGAVGALIVYDIT-----------RRTTFDSISRWLDELKTHSDTTVARM 125
             R      +      + +  ++                +S + +   +        + +
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVI 116

Query: 126 LVGNKCDLESIRNVSTEEGKSLAEAEG--------------------------LFFMETS 159
           L  NK DL   + + +       E +G                          ++   T 
Sbjct: 117 LFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTC 176

Query: 160 ALDSTNVKSAFEIVIREIYSN 180
           A D+ N++  F  V   I   
Sbjct: 177 ATDTENIRFVFAAVKDTILQL 197

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

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]

 Score = 92.9 bits (229), Expect = 2e-24
 Identities = 48/166 (28%), Positives = 80/166 (48%), Gaps = 3/166 (1%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
             +++V+IG+  VGKS L + +A    +       +G +   +++ +DG+     + D  
Sbjct: 2   TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMW 61

Query: 74  -GQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTT-VARMLVGNKC 131
             +     +     +     LIVY IT R +F+  S    +L+    T  +  +LVGNK 
Sbjct: 62  ENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS 121

Query: 132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           DL   R VS  EG++ A      F+ETSA    NVK  FE ++R++
Sbjct: 122 DLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 167

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

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), ARL8A [TaxId: 9606]

 Score = 87.4 bits (215), Expect = 2e-22
 Identities = 32/165 (19%), Positives = 65/165 (39%), Gaps = 8/165 (4%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            ++ ++G    GK+  ++  A  +FN     T+G        +I    V  ++WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNM----RKITKGNVTIKLWDIGGQP 58

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
           RFR++   Y RG    + + D   +   ++    L  L        +  +++GNK DL  
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 118

Query: 136 ---IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
               + +  +   S  +   +     S  +  N+    + +I+  
Sbjct: 119 ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 163

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

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: Mouse (Mus musculus) [TaxId: 10090]

 Score = 87.6 bits (216), Expect = 4e-22
 Identities = 34/203 (16%), Positives = 59/203 (29%), Gaps = 45/203 (22%)

Query: 16  LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ 75
           L KI+++G    GKS  L +            T G+         + K V  ++ D  GQ
Sbjct: 2   LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYD----FEIKNVPFKMVDVGGQ 54

Query: 76  ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDE-----------LKTHSDTTVAR 124
              R      +      L +   +         R  +            +     + V+ 
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 125 MLVGNKCDLESIRNVSTEEGKSLAEAEG---------------------------LFFME 157
           +L  NK DL   +           E EG                           L+   
Sbjct: 115 ILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHF 174

Query: 158 TSALDSTNVKSAFEIVIREIYSN 180
           T+A+++ N++  F  V   I  +
Sbjct: 175 TTAINTENIRLVFRDVKDTILHD 197

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

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]

 Score = 84.8 bits (208), Expect = 2e-21
 Identities = 35/167 (20%), Positives = 55/167 (32%), Gaps = 9/167 (5%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            +I+I+G    GK+ +L R    E       T           +  K +K Q+WD  G  
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEV-----VTTIPTIGFNVETVTYKNLKFQVWDLGGLT 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
             R     YY      + V D   R         L  +    +      ++  NK D+E 
Sbjct: 61  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 120

Query: 136 IRNVS---TEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYS 179
               S      G    +       +TSA   T +  A E ++  + S
Sbjct: 121 AMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS 167

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

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]

 Score = 82.0 bits (201), Expect = 2e-20
 Identities = 29/169 (17%), Positives = 58/169 (34%), Gaps = 16/169 (9%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
           K++ +G    GK+ LL     +       AT+   +   S E+    +K   +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRL-----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 78  FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVG-NKCDLESI 136
            R +   Y+    G + + D      FD     LD L   ++      ++  NK D  + 
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 137 RNVS----------TEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR 175
            + +          T   + +     +     S +       AF+ + +
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ 165

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

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]

 Score = 76.5 bits (187), Expect = 6e-18
 Identities = 30/201 (14%), Positives = 59/201 (29%), Gaps = 46/201 (22%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K++++G    GKS ++ +              G+           K++  +++D  GQ 
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHEA-----GTGIVE----THFTFKDLHFKMFDVGGQR 53

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTF-----------DSISRWLDELKTHSDTTVARM 125
             R      + G    +    ++                +S+  +         T  + +
Sbjct: 54  SERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSII 113

Query: 126 LVGNKCDLESIRNVSTEEGKSLAEAEG--------------------------LFFMETS 159
           L  NK DL   +   +       E  G                          ++   T 
Sbjct: 114 LFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTC 173

Query: 160 ALDSTNVKSAFEIVIREIYSN 180
           A D+ NV+  F+ V   I  N
Sbjct: 174 ATDTKNVQFVFDAVTDVIIKN 194

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

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: Cow (Bos taurus) [TaxId: 9913]

 Score = 76.7 bits (188), Expect = 8e-18
 Identities = 23/191 (12%), Positives = 56/191 (29%), Gaps = 23/191 (12%)

Query: 14  EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTA 73
               +++++G    GKS ++ +            T G+            +V   ++D  
Sbjct: 4   RATHRLLLLGAGESGKSTIVKQMRILHVVL----TSGIFETK----FQVDKVNFHMFDVG 55

Query: 74  GQERFRAVTSAYYRGAVGALIVY-----------DITRRTTFDSISRWLDELKTHSDTTV 122
           GQ   R      +      + V            D       ++++ +          T+
Sbjct: 56  GQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTI 115

Query: 123 ARMLVGNKCDLESIRNVSTEEG-KSLAEAEGLFFMETSALDSTNVKSAFEIV---IREIY 178
           + +L  NK DL + + ++ +   +        +     A                IR+ +
Sbjct: 116 SVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEF 175

Query: 179 SNVSRKVLNSD 189
             +S    +  
Sbjct: 176 LRISTASGDGR 186

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

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]

 Score = 73.6 bits (179), Expect = 7e-17
 Identities = 32/177 (18%), Positives = 48/177 (27%), Gaps = 21/177 (11%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+V +G    GK+ LL     +    H            S E+    +    +D  G  
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQHV-----PTLHPTSEELTIAGMTFTTFDLGGHI 68

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDT-TVARMLVGNKCDLES 135
           + R V   Y     G + + D             LD L T      V  +++GNK D   
Sbjct: 69  QARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE 128

Query: 136 IRNVS---------------TEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
             +                          A  L     S L        F  + + I
Sbjct: 129 AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

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: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 65.8 bits (159), Expect = 6e-14
 Identities = 18/147 (12%), Positives = 44/147 (29%), Gaps = 7/147 (4%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER 77
            ++ +G    GK+ L  R    ++      +I        +  +       I     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 78  FRAVTSAYYRGAVGALIVYDI-TRRTTFDSISRWLDELKTHSDTTVARM---LVGNKCDL 133
              +   +   A   + V D    +     ++ +L ++   S          +  NK D+
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 134 ESIRNVSTEEGKSLAEAEGLFFMETSA 160
              ++   +  +   E E      T +
Sbjct: 121 AMAKSA--KLIQQQLEKELNTLRVTRS 145

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

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: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 56.2 bits (134), Expect = 2e-10
 Identities = 33/206 (16%), Positives = 70/206 (33%), Gaps = 19/206 (9%)

Query: 15  YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG 74
           Y   I+I G    GK++LL+    +   P    T+  +    + + DG  V   + D  G
Sbjct: 2   YQPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAADYDGSGV--TLVDFPG 55

Query: 75  QERFRAVTSAYYRGAVGA-----LIVYDITRRTTFDSISRWLDELKTH----SDTTVARM 125
             + R   S Y +           +V          + + +L ++ +      +  +  +
Sbjct: 56  HVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL 115

Query: 126 LVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREIYSNVSRKV 185
           +  NK +L + R  S  +    +E + +      +L+    K   E             +
Sbjct: 116 IACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLD----VL 171

Query: 186 LNSDSYKAELSLNRVTLVKSETDGSK 211
            ++D +K       V   +   +  K
Sbjct: 172 QSTDGFKFANLEASVVAFEGSINKRK 197

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

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 tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 50.5 bits (119), Expect = 1e-08
 Identities = 29/161 (18%), Positives = 46/161 (28%), Gaps = 1/161 (0%)

Query: 17  FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE 76
            K+VI G    GKS+LL+  A  E    +    G         I    +   I DTAG  
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTD-IAGTTRDVLREHIHIDGMPLHIIDTAGLR 60

Query: 77  RFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI 136
                            I          D  +    +        +AR+       +   
Sbjct: 61  EASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRN 120

Query: 137 RNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           +   T E   ++E  G   +  SA     V      + + +
Sbjct: 121 KADITGETLGMSEVNGHALIRLSARTGEGVDVLRNHLKQSM 161

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} Length = 160

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: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 40.3 bits (93), Expect = 4e-05
 Identities = 35/168 (20%), Positives = 57/168 (33%), Gaps = 19/168 (11%)

Query: 18  KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG--- 74
           ++VI+G   VGKS LL+R    +    +    G      S EI  + +  +I DTAG   
Sbjct: 2   RMVIVGKPNVGKSTLLNRLLNEDRAIVTD-IPGTTRDVISEEIVIRGILFRIVDTAGVRS 60

Query: 75  ------QERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVG 128
                 +      T      A   L V D +     +                + ++ V 
Sbjct: 61  ETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKRYLVVINKVDVV 120

Query: 129 NKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE 176
            K + E I+N                 ++ SAL    ++   E + RE
Sbjct: 121 EKINEEEIKN---------KLGTDRHMVKISALKGEGLEKLEESIYRE 159

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

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]

 Score = 40.0 bits (92), Expect = 6e-05
 Identities = 20/165 (12%), Positives = 51/165 (30%), Gaps = 7/165 (4%)

Query: 19  IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ--- 75
           + ++G    GKS+LL+   R            +      +    +E +  + D  G    
Sbjct: 4   VGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLS-PNLGVVEVSEEERFTLADIPGIIEG 62

Query: 76  -ERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRW--LDELKTHSDTTVARMLVGNKCD 132
               + +   + R      ++  +         +      E+  +    + R  +     
Sbjct: 63  ASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNK 122

Query: 133 LESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIREI 177
           ++ +   + +        EGL  +  SAL    + +  E +   +
Sbjct: 123 VDLLEEEAVKALADALAREGLAVLPVSALTGAGLPALKEALHALV 167

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

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: Escherichia coli [TaxId: 562]

 Score = 38.2 bits (87), Expect = 2e-04
 Identities = 17/177 (9%), Positives = 48/177 (27%), Gaps = 11/177 (6%)

Query: 13  EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDT 72
            +   ++   G S  GKS+ L+     +    +  T G        E+   +    +   
Sbjct: 13  SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGY 72

Query: 73  AGQ-------ERFRAVTSAYYRGAVGALIVYDITRRTTF--DSISRWLDELKTHSDTTVA 123
                      +++     Y         +  +        D   + ++     +   + 
Sbjct: 73  GYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLV 132

Query: 124 RMLVGNKCDLESIRNVSTEEGKSLAEAEGLF-FMETSALDSTNVKSAFEIVIREIYS 179
            +   +K    + +       +++    G       S+L    V    +  +   +S
Sbjct: 133 LLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQ-KLDTWFS 188

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

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]

 Score = 38.6 bits (89), Expect = 4e-04
 Identities = 17/125 (13%), Positives = 30/125 (24%), Gaps = 9/125 (7%)

Query: 13  EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQS--MEIDGKEVKAQIW 70
           +  +  + + G++  GKS+ ++            A  GV   T                W
Sbjct: 53  DSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFW 112

Query: 71  DTAGQERFRAVTSAY---YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLV 127
           D  G          Y    +       +     R   + I      +            V
Sbjct: 113 DLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDI-DIAKAISMMKKEFY---FV 168

Query: 128 GNKCD 132
             K D
Sbjct: 169 RTKVD 173

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

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]

 Score = 37.4 bits (85), Expect = 5e-04
 Identities = 26/176 (14%), Positives = 52/176 (29%), Gaps = 13/176 (7%)

Query: 17  FKIVIIGDSAVGKSNLLSR-----------YARNEFNPHSKATIGVEFQTQSMEIDGKEV 65
            K+ I+G   VGKS L +                  +P          +   ++  G   
Sbjct: 9   IKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRR 68

Query: 66  KAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM 125
           K+++     ++            A   +IV D T+  T           +    + V   
Sbjct: 69  KSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFN 128

Query: 126 LVGNKCDLESIRNVSTEEGKS-LAEAEGLFFMETSALDSTNVKSAFEIVIREIYSN 180
                   E   +  T+  +  L   +    + TSA    N+    +  +   Y++
Sbjct: 129 KWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMID-AMNLAYAS 183

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

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]

 Score = 37.5 bits (86), Expect = 6e-04
 Identities = 12/137 (8%), Positives = 33/137 (24%), Gaps = 10/137 (7%)

Query: 17  FKIVIIGDSAVGKSNLLSRYA-RNEFNPHSKATIGVEFQTQSMEIDGKEV----KAQIWD 71
             I+++G   VGKS+ ++        +     + G      S    G  +       + +
Sbjct: 33  LTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIE 92

Query: 72  TAGQERF---RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVAR--ML 126
                        +    +     L V  +      +        +       +    ++
Sbjct: 93  GGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIV 152

Query: 127 VGNKCDLESIRNVSTEE 143
                       +  +E
Sbjct: 153 ALTHAQFSPPDGLPYDE 169

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} Length = 184

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 engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 34.7 bits (78), Expect = 0.004
 Identities = 33/186 (17%), Positives = 54/186 (29%), Gaps = 34/186 (18%)

Query: 19  IVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF 78
           I+  G S VGKS L+ R          K   G         I+ +    +I D  G    
Sbjct: 3   IIFAGRSNVGKSTLIYRLT------GKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFM 56

Query: 79  RAVTSAYYRGAVGA-------------LIVYDITRRTTFDSISRWLDELKTHSDTTVARM 125
             +                        + V  +  +   + I RW    +   D    + 
Sbjct: 57  MGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQF 116

Query: 126 L---------VGNKCDL-----ESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE 171
           L           NK D      E I  ++ +    L+E + +F    SA    N++    
Sbjct: 117 LRELDIPTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFI-PISAKFGDNIERLKN 175

Query: 172 IVIREI 177
            +   I
Sbjct: 176 RIFEVI 181

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	222
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.97
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.96
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.96
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.96
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.91
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.91
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.9
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.9
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.9
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.9
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.88
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.88
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.87
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.87
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.87
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.87
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.86
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.86
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.85
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.84
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.84
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.83
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.82
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.81
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.81
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.79
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.76
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.73
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.72
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.7
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.69
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.64
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.64
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.63
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.63
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.62
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.47
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.47
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.46
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.31
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.28
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.26
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.26
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.24
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.06
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.0
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.89
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.5
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.39
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.28
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.25
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.23
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.22
d1okkd2	207	GTPase domain of the signal recognition particle r	98.16
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.13
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.13
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.11
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.08
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.06
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.89
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.55
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.46
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.42
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.4
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.33
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	97.29
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.26
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.25
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.24
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.21
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.19
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.18
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.16
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.13
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.11
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.11
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.09
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.08
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.07
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.07
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.07
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.06
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.04
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.04
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.03
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.03
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.01
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.0
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.0
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.98
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.98
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.97
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.96
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.96
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.96
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.91
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.91
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.9
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.89
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.89
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.87
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.85
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.84
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.84
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.83
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.82
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.82
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.82
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.82
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.79
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.79
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.77
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.77
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.76
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.76
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.67
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.67
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.66
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.66
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.64
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.63
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.56
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.55
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.55
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.5
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.47
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.42
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.39
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.38
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.36
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.36
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.35
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.33
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.32
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.3
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.16
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.14
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.04
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.0
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.95
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.95
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.86
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.84
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.82
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.8
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.79
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.78
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.69
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.62
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.46
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.39
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.39
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.09
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.99
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.94
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.9
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.87
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.84
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.82
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.8
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.77
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.77
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.75
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.72
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.71
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.58
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.57
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.56
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.55
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.51
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.44
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.42
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.34
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.19
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.1
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.1
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.06
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.74
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	93.74
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.71
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.65
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.55
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	93.54
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.54
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.42
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	93.38
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.26
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.26
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.21
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.11
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	92.94
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.35
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.35
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.13
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	91.99
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.87
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.56
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	91.47
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	91.4
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.0
d1xpua3	289	Transcription termination factor Rho, ATPase domai	90.75
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	90.16
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.04
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	89.88
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	89.83
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	89.06
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	88.38
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	87.83
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.69
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	87.57
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	87.19
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	86.99
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	86.32
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	83.35
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	82.8
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	82.76
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	82.55
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	82.5
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	82.29
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	81.41

>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=100.00  E-value=2.6e-36  Score=222.34  Aligned_cols=166  Identities=46%  Similarity=0.839  Sum_probs=156.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.+||+++|++|||||||+++|.++.+...+.++.+.+.....+......+.+++||+||++.+..++..+++.+|++|
T Consensus         3 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~i   82 (169)
T d3raba_           3 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   82 (169)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEE
T ss_pred             CeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            56799999999999999999999999998888899898999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||+++++++..+..|+..+........|+++|+||.|+.+...+..++++.+++..+++|++|||++|.||+++|++|
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l  162 (169)
T d3raba_          83 LMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL  162 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHH
Confidence            99999999999999999988887777788999999999999888899999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      ++.+++
T Consensus       163 ~~~i~e  168 (169)
T d3raba_         163 VDVICE  168 (169)
T ss_dssp             HHHHHT
T ss_pred             HHHHhh
Confidence            998765

>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=100.00  E-value=4.5e-36  Score=221.47  Aligned_cols=168  Identities=43%  Similarity=0.770  Sum_probs=157.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.+||+++|++|||||||+++|..+.+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+++++
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i   82 (171)
T d2ew1a1           3 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALI   82 (171)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEE
Confidence            56799999999999999999999999998888899899999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+|+.+.+|+..+........|+++|+||.|+.+...+..+++..++...++++++|||++|.||+++|.+|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l  162 (171)
T d2ew1a1          83 LTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDL  162 (171)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHH
Confidence            99999999999999999999888777789999999999998888899999999999999999999999999999999999


Q ss_pred             HHHHHHHh
Q 040481          174 IREIYSNV  181 (222)
Q Consensus       174 ~~~~~~~~  181 (222)
                      +++++...
T Consensus       163 ~~~l~~~~  170 (171)
T d2ew1a1         163 ACRLISEA  170 (171)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            98887653

>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=100.00  E-value=8e-36  Score=219.07  Aligned_cols=165  Identities=51%  Similarity=0.881  Sum_probs=155.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.+||+++|+++||||||+++|.++.+...+.++.+.++.......++..+.+.+||++|++.+..++..+++.+|++|
T Consensus         2 ~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~i   81 (166)
T d1z0fa1           2 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   81 (166)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEE
Confidence            46789999999999999999999999999888888888999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||+++.++|+.+..|+..+........|+++++||.|+........++++.+++..+++|++|||++|.||+++|..|
T Consensus        82 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i  161 (166)
T d1z0fa1          82 MVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEA  161 (166)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988888889999999999998888888899999999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          174 IREIY  178 (222)
Q Consensus       174 ~~~~~  178 (222)
                      ++.++
T Consensus       162 ~~~i~  166 (166)
T d1z0fa1         162 AKKIY  166 (166)
T ss_dssp             HHHHC
T ss_pred             HHHhC
Confidence            98763

>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=100.00  E-value=6.9e-36  Score=220.89  Aligned_cols=169  Identities=31%  Similarity=0.478  Sum_probs=153.0

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ++...+||+++|++|||||||+++|+.+.+...+.++. .+.....+.+++..+.+.+||++|.+.+...+..+++.+|+
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~-~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~   80 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTI-EDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   80 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTC-CEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCccccccc-ccceeeEeccCCeeeeeeccccccccccccccchhhcccee
Confidence            56678999999999999999999999999888777774 45556778889999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +|+|||++++.+|+.+..|+..+... ....+|+++|+||+|+.+.+.+..+++..++..++++|++|||++|.||+++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f  160 (173)
T d2fn4a1          81 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  160 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             eeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHH
Confidence            99999999999999999999887654 34678999999999998888889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 040481          171 EIVIREIYSNV  181 (222)
Q Consensus       171 ~~i~~~~~~~~  181 (222)
                      ..|++.+.+++
T Consensus       161 ~~l~~~i~k~~  171 (173)
T d2fn4a1         161 EQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999887654

>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=100.00  E-value=3.7e-36  Score=220.47  Aligned_cols=162  Identities=36%  Similarity=0.643  Sum_probs=152.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||+++|.++.+...+.++.+.+........++..+.+.+||++|+..+...+..+++.+|++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            48999999999999999999999999888999999888888899999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ||++++.+|+.+..|+..+.... .++|+++|+||+|+.+.+.+..++++.+++.++++|+++||++|.||+++|+.|++
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~  160 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAE  160 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHH
T ss_pred             EeccchhhhhhcccccccccccC-CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHH
Confidence            99999999999999999987654 45899999999999988889999999999999999999999999999999999999


Q ss_pred             HHH
Q 040481          176 EIY  178 (222)
Q Consensus       176 ~~~  178 (222)
                      +++
T Consensus       161 ~~l  163 (164)
T d1z2aa1         161 KHL  163 (164)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            876

>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=100.00  E-value=3e-36  Score=221.61  Aligned_cols=165  Identities=40%  Similarity=0.707  Sum_probs=148.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|++|||||||+++|..+.+...+.++.+.+.....+..++..+.+.+||++|...+...+..+++.+|++|+
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |||+++++||+.+..|+..+........|+++|+||+|+...+.+..++++.++..++++|++|||++|.||+++|.+|+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~  161 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLC  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHH
Confidence            99999999999999999888777667789999999999998889999999999999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          175 REIYS  179 (222)
Q Consensus       175 ~~~~~  179 (222)
                      +++++
T Consensus       162 ~~i~~  166 (167)
T d1z08a1         162 KRMIE  166 (167)
T ss_dssp             HHHHC
T ss_pred             HHHhh
Confidence            98763

>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=100.00  E-value=1.3e-35  Score=218.45  Aligned_cols=165  Identities=30%  Similarity=0.395  Sum_probs=134.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.+...... .++ +.+.....+.+++..+.+.+||++|++.+..++..+++.+|++|+||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~-~~~-~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~   79 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPE-AEA-AGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   79 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC-----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCc-CCe-eeeeecceeeccccccceeeeecccccccceecccchhhhhhhceec
Confidence            6999999999999999999998765433 333 33444566778999999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      |++++.+|+.+..|+..+..... ..+|+++|+||+|+.+.+++...++.+++..++++|++|||++|.||+++|..|++
T Consensus        80 d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~  159 (168)
T d2gjsa1          80 SVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVR  159 (168)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHH
T ss_pred             cccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHH
Confidence            99999999999999998877643 67899999999999988889999999999999999999999999999999999999


Q ss_pred             HHHHHhhh
Q 040481          176 EIYSNVSR  183 (222)
Q Consensus       176 ~~~~~~~~  183 (222)
                      .+..++..
T Consensus       160 ~i~~~~~~  167 (168)
T d2gjsa1         160 QIRLRRDS  167 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhhC
Confidence            88776543

>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=100.00  E-value=1.6e-35  Score=217.91  Aligned_cols=164  Identities=35%  Similarity=0.552  Sum_probs=147.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|+++||||||+++|..+.+...+.+|.+..+. ..+.+++..+.+.+||++|.+.+...+..+++.+|++|+
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccc-cccccccccccccccccccccchhhhhhhcccccceeEE
Confidence            5689999999999999999999999998888888776553 567789999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+.+.+..++++.++..++++|++|||++|.||+++|.+|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l  161 (168)
T d1u8za_          82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDL  161 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHH
Confidence            999999999999999999887654 4678999999999998888899999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      ++++.+
T Consensus       162 ~~~i~~  167 (168)
T d1u8za_         162 MREIRA  167 (168)
T ss_dssp             HHHHHT
T ss_pred             HHHHHC
Confidence            998764

>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=100.00  E-value=4e-35  Score=217.14  Aligned_cols=170  Identities=62%  Similarity=1.034  Sum_probs=155.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.+||+++|++|||||||+++|.++.+...+.++.+.+.....+..++..+.+.+||++|++.+...+..+++.+|++|
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i   81 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   81 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEE
Confidence            56789999999999999999999999998888888888888888889999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++.+|..+..|+..+......++|+++|+||+|+.+.+....+....+....+.+|++|||++|.||+++|+.+
T Consensus        82 ~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l  161 (175)
T d2f9la1          82 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI  161 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHH
Confidence            99999999999999999999988888889999999999998877888888888999999999999999999999999999


Q ss_pred             HHHHHHHhhh
Q 040481          174 IREIYSNVSR  183 (222)
Q Consensus       174 ~~~~~~~~~~  183 (222)
                      ++.+++...+
T Consensus       162 ~~~i~~~~~~  171 (175)
T d2f9la1         162 LTEIYRIVSQ  171 (175)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHhhh
Confidence            9998866554

>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=100.00  E-value=4.2e-35  Score=216.76  Aligned_cols=169  Identities=45%  Similarity=0.795  Sum_probs=158.1

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ++.+||+++|++|||||||+++|..+.+.+.+.++.+.......+..++..+.+.+||+||++.+..++..+++.+|++|
T Consensus         3 ~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i   82 (174)
T d2bmea1           3 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGAL   82 (174)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEE
Confidence            56799999999999999999999999998888998888888888888999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||.+++++|..+..|+..+.......+|+++|+||+|+........+.+..++...+++|++|||++|.||+++|.++
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l  162 (174)
T d2bmea1          83 LVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQC  162 (174)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHH
Confidence            99999999999999999999988877889999999999998888898999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q 040481          174 IREIYSNVS  182 (222)
Q Consensus       174 ~~~~~~~~~  182 (222)
                      ++.++++..
T Consensus       163 ~~~i~~~~~  171 (174)
T d2bmea1         163 ARKILNKIE  171 (174)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999887653

>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=100.00  E-value=4.8e-35  Score=220.16  Aligned_cols=173  Identities=49%  Similarity=0.847  Sum_probs=161.3

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      ..++.+||+|+|+++||||||+++|..+.+...+.++.+..+....+.+.+..+.+++||+||++.+..++..+++.+|+
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~   81 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   81 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCE
Confidence            46788999999999999999999999999999999999988888889999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      +|+|||++++++|..+..|+..+.......+|+++|+||.|+.+...+..++...++...++.|+++||++|.||.++|.
T Consensus        82 ~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~  161 (194)
T d2bcgy1          82 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  161 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHH
Confidence            99999999999999999999988877778899999999999998889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhh
Q 040481          172 IVIREIYSNVSRK  184 (222)
Q Consensus       172 ~i~~~~~~~~~~~  184 (222)
                      .|++.+.+...++
T Consensus       162 ~l~~~i~~~~~~~  174 (194)
T d2bcgy1         162 TMARQIKESMSQQ  174 (194)
T ss_dssp             HHHHHHHHHCCHH
T ss_pred             HHHHHHHHHhhhc
Confidence            9999888765443

>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=100.00  E-value=5.2e-35  Score=215.35  Aligned_cols=164  Identities=34%  Similarity=0.528  Sum_probs=149.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +++||+++|+++||||||++++.++.+.+.+.++.+.. ....+..++..+.+++||++|.+.+...+..+++.+|++++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ll   81 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   81 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeec-cccccccccccccccccccccccccccchhhhhhhccEEEE
Confidence            57999999999999999999999999888888876644 45567789999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC-CHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEI  172 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~~~  172 (222)
                      |||++++.+|+.+..|+..+.+.. ..++|+++|+||+|+...+.+..+++.+++..++++|++|||+++. ||+++|..
T Consensus        82 v~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~  161 (169)
T d1x1ra1          82 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHD  161 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHH
T ss_pred             ecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHH
Confidence            999999999999999999887653 4679999999999999888899999999999999999999999876 99999999


Q ss_pred             HHHHHHH
Q 040481          173 VIREIYS  179 (222)
Q Consensus       173 i~~~~~~  179 (222)
                      |++.+++
T Consensus       162 l~~~i~~  168 (169)
T d1x1ra1         162 LVRVIRQ  168 (169)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998775

>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=100.00  E-value=7.5e-35  Score=214.03  Aligned_cols=164  Identities=38%  Similarity=0.726  Sum_probs=154.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      .+.+||+++|+++||||||+++|..+.+...+.++.+..........+.....+.+||++|++.+...+..+++.+|++|
T Consensus         2 ~k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   81 (167)
T d1z0ja1           2 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAI   81 (167)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEE
T ss_pred             CceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceE
Confidence            35789999999999999999999999999999999898888888888999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      +|||++++++|+.+..|+..+........|+++|+||+|+.+.+.+..+++++++...+++|++|||++|.||+++|..|
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l  161 (167)
T d1z0ja1          82 IVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEI  161 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHH
Confidence            99999999999999999999888888889999999999998888899999999999999999999999999999999999


Q ss_pred             HHHH
Q 040481          174 IREI  177 (222)
Q Consensus       174 ~~~~  177 (222)
                      ++++
T Consensus       162 ~~~i  165 (167)
T d1z0ja1         162 SRRI  165 (167)
T ss_dssp             HHHC
T ss_pred             HHhC
Confidence            8865

>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=100.00  E-value=7.1e-35  Score=215.40  Aligned_cols=169  Identities=53%  Similarity=0.919  Sum_probs=153.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|++|||||||++++.++.+...+.++.+...........+..+.+.+||++|+..+...+..++..+|++|+
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            56899999999999999999999999988888888888888888888999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      |||++++.+|+.+..|+..+......++|+++|+||+|+...+....+++..++...+++|++|||++|.||+++|..|+
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~  161 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTA  161 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHH
T ss_pred             EEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHH
Confidence            99999999999999999999888778899999999999988888899999999999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 040481          175 REIYSNVSR  183 (222)
Q Consensus       175 ~~~~~~~~~  183 (222)
                      +.+++...+
T Consensus       162 ~~i~~~~~~  170 (173)
T d2a5ja1         162 KEIYRKIQQ  170 (173)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            998866544

>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=100.00  E-value=2.9e-35  Score=215.57  Aligned_cols=161  Identities=40%  Similarity=0.753  Sum_probs=151.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.++.+...+.++.+..........++..+.+.+||++|++.+...+..++..+|++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            58999999999999999999999999999999888888888888999999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      |++++.+|+.+..|+..+.......+|+++|+||.|+.+.+.+..+++.+++..++++|++|||++|.||+++|..|++.
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~  160 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA  160 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHh
Confidence            99999999999999999888777789999999999998888889999999999999999999999999999999999886


Q ss_pred             H
Q 040481          177 I  177 (222)
Q Consensus       177 ~  177 (222)
                      +
T Consensus       161 l  161 (164)
T d1yzqa1         161 L  161 (164)
T ss_dssp             S
T ss_pred             h
Confidence            5

>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=100.00  E-value=1.2e-35  Score=219.54  Aligned_cols=170  Identities=48%  Similarity=0.882  Sum_probs=129.8

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      .++.+||+++|.++||||||+++|+++.+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~   82 (173)
T d2fu5c1           3 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   82 (173)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEE
Confidence            46779999999999999999999999988888888889899999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||++++.+|+.+..|+..+........|+++|+||.|+........+++..++...+++|++|||++|.||+++|.+
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~  162 (173)
T d2fu5c1          83 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFT  162 (173)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHH
T ss_pred             EEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998887788999999999999888888888899999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q 040481          173 VIREIYSNVS  182 (222)
Q Consensus       173 i~~~~~~~~~  182 (222)
                      |++.+.++.+
T Consensus       163 l~~~i~~k~~  172 (173)
T d2fu5c1         163 LARDIKAKMD  172 (173)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhcC
Confidence            9998877654

>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=100.00  E-value=3.5e-35  Score=215.82  Aligned_cols=163  Identities=33%  Similarity=0.456  Sum_probs=148.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..+||+++|++|||||||+++|.++.+...+.|+.+.++ ...+.+++..+.+.+||++|.+.+..++..++..+|++|+
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYIL   81 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEE
T ss_pred             cceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhhh
Confidence            457999999999999999999999998888888877665 4667789999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++++|+.+..|+..+.... ..++|+++|+||+|+...+.++.+++++++..++++|++|||++|.||+++|..|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~l  161 (167)
T d1xtqa1          82 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHH
T ss_pred             hcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHH
Confidence            999999999999999998886654 4679999999999998888899999999999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          174 IREIY  178 (222)
Q Consensus       174 ~~~~~  178 (222)
                      ++.+.
T Consensus       162 i~~~~  166 (167)
T d1xtqa1         162 ILEAE  166 (167)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            88764

>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=100.00  E-value=1.5e-34  Score=213.03  Aligned_cols=166  Identities=41%  Similarity=0.716  Sum_probs=155.4

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      +...+||+++|++|||||||+++|..+.+...+.++.+..+....+......+.+.+||++|++.+...+..+++.+|++
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   82 (170)
T d1r2qa_           3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             ceeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceE
Confidence            34568999999999999999999999999999899999888888888899999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+|||+++..+|+.+..|+..+......++|+++|+||+|+.+.+.++.+++..++..++++|++|||++|.||+++|..
T Consensus        83 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~  162 (170)
T d1r2qa_          83 IVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHH
Confidence            99999999999999999999988877788999999999999988899999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          173 VIREIY  178 (222)
Q Consensus       173 i~~~~~  178 (222)
                      |++.+.
T Consensus       163 l~~~i~  168 (170)
T d1r2qa_         163 IAKKLP  168 (170)
T ss_dssp             HHHTSC
T ss_pred             HHHHHh
Confidence            987654

>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=100.00  E-value=7e-35  Score=217.80  Aligned_cols=171  Identities=36%  Similarity=0.702  Sum_probs=152.3

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECC----------eEEEEEEEeCCCcchhhhhHH
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDG----------KEVKAQIWDTAGQERFRAVTS   83 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~i~D~~G~~~~~~~~~   83 (222)
                      ++.+||+++|++|||||||+++|.++.+...+.++.+.++....+.+++          ..+.+.+||++|++.+..++.
T Consensus         3 d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~   82 (186)
T d2f7sa1           3 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTT   82 (186)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHH
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHH
Confidence            5679999999999999999999999998888888877777766665543          346789999999999999999


Q ss_pred             HhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCC
Q 040481           84 AYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALD  162 (222)
Q Consensus        84 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  162 (222)
                      .+++.+|++|+|||++++.+|+.+..|+..+..... ...|+++|+||.|+.+.+.+..+++.++++.++++|++|||++
T Consensus        83 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~  162 (186)
T d2f7sa1          83 AFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAAT  162 (186)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTT
T ss_pred             HHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCC
Confidence            999999999999999999999999999988766543 5678899999999998889999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhhh
Q 040481          163 STNVKSAFEIVIREIYSNVSRK  184 (222)
Q Consensus       163 ~~~i~~~~~~i~~~~~~~~~~~  184 (222)
                      |.||+++|++|++.+.++.++.
T Consensus       163 ~~~i~e~f~~l~~~i~~k~~~~  184 (186)
T d2f7sa1         163 GQNVEKAVETLLDLIMKRMEQC  184 (186)
T ss_dssp             TBTHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999988776553

>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=100.00  E-value=2.7e-34  Score=211.87  Aligned_cols=164  Identities=33%  Similarity=0.522  Sum_probs=144.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||++++..+.+...+.++.+ +.....+.+++..+.+++||++|...+...+..+++.+|++++|
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   83 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLV   83 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEEe
Confidence            47999999999999999999999988888877755 56667788899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVI  174 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  174 (222)
                      ||.+++.+|+.+..|+..+.... ....|++||+||+|+.+.+.+..+++.++++.++++|++|||++|.||+++|..|+
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~  163 (171)
T d2erya1          84 FSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELV  163 (171)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             eccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHHH
Confidence            99999999999999998765543 45689999999999998888999999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          175 REIYSN  180 (222)
Q Consensus       175 ~~~~~~  180 (222)
                      +.+.++
T Consensus       164 ~~i~k~  169 (171)
T d2erya1         164 RVIRKF  169 (171)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            987644

>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=100.00  E-value=6.1e-35  Score=215.25  Aligned_cols=161  Identities=29%  Similarity=0.428  Sum_probs=144.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||+++|+++.+...+.+|.+..+ ......++..+.+.+||++|.+.+...+..+++.+|++|+|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   80 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   80 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEEE
Confidence            58999999999999999999999998888888877444 44566788999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS--DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      ||++++++|..+..|+..+....  ...+|+++|+||+|+.+.+.+..+++++++..++++|++|||++|.||+++|..|
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l  160 (171)
T d2erxa1          81 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL  160 (171)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHH
Confidence            99999999999999998876543  3678999999999998888899999999999999999999999999999999988


Q ss_pred             HHHH
Q 040481          174 IREI  177 (222)
Q Consensus       174 ~~~~  177 (222)
                      ++.+
T Consensus       161 ~~~~  164 (171)
T d2erxa1         161 LNLE  164 (171)
T ss_dssp             HHTC
T ss_pred             HHHH
Confidence            8643

>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=100.00  E-value=2.9e-34  Score=211.13  Aligned_cols=164  Identities=34%  Similarity=0.451  Sum_probs=144.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      ++||+++|++|||||||++++..+.+...+.||.+.++.. .+..++..+.+.+||++|...+. ....+++.+|++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~-~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRH-QATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEE-EEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccc-cccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            5899999999999999999999999988889988776554 44568889999999999998764 556788999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCC-CHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDST-NVKSAFEIV  173 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~~~i  173 (222)
                      ||++++.+|+.+..|+..+... ...+.|+++|+||+|+.+.+.++.+++++++..++++|++|||++|. ||+++|..|
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l  159 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYEL  159 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHH
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHH
Confidence            9999999999999887766543 33678999999999998888899999999999999999999999998 599999999


Q ss_pred             HHHHHHHh
Q 040481          174 IREIYSNV  181 (222)
Q Consensus       174 ~~~~~~~~  181 (222)
                      ++.+.+++
T Consensus       160 ~~~i~~~r  167 (168)
T d2atva1         160 CREVRRRR  167 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            99887654

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {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: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.3e-34  Score=214.92  Aligned_cols=165  Identities=30%  Similarity=0.505  Sum_probs=144.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      |....+||+++|++|||||||+++|+.+.+...+.++.+ +.....+...+..+.+.+||++|++.+...+..+++.+|+
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~   83 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   83 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhcccccce
Confidence            677889999999999999999999999998888888875 4455666678888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEE
Q 040481           92 ALIVYDITRRTTFDSISR-WLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEG-LFFME  157 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~~  157 (222)
                      +++|||+++++||+.+.. |...++.. ..++|+++|+||+|+.+            .+.+..+++.+++..++ +.|++
T Consensus        84 ~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E  162 (185)
T d2atxa1          84 FLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVE  162 (185)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEE
T ss_pred             eeeccccchHHHHHHHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEE
Confidence            999999999999998865 44555444 46789999999999864            35678889999999887 78999


Q ss_pred             EccCCCCCHHHHHHHHHHHHH
Q 040481          158 TSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       158 ~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      |||++|.||+++|+.+++.++
T Consensus       163 ~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         163 CSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHH
T ss_pred             ecCCCCcCHHHHHHHHHHHHc
Confidence            999999999999999998875

>d1kaoa_ c.37.1.8 (A:) Rap2a {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: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.6e-34  Score=210.34  Aligned_cols=163  Identities=35%  Similarity=0.554  Sum_probs=148.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|++|||||||+++|+++.+...+.++.+ +........++..+.+.+||++|.+.+...+..+++.+|++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceee
Confidence            468999999999999999999999998888877766 4555667789999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|..+..|+..+.... ...+|++||+||+|+.+.+.+..+++..++..++++|++|||++|.||+++|..|
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i  160 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHH
Confidence            999999999999999998887654 3678999999999998888899999999999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          174 IREIY  178 (222)
Q Consensus       174 ~~~~~  178 (222)
                      ++++.
T Consensus       161 ~~~i~  165 (167)
T d1kaoa_         161 VRQMN  165 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            88764

>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=100.00  E-value=6.7e-34  Score=209.45  Aligned_cols=163  Identities=42%  Similarity=0.711  Sum_probs=151.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      .++||+++|++|||||||+++|.++.+...+.++.+.++....+..++..+.+.+||++|.+.+...+..++..+|++|+
T Consensus         2 ~~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1ek0a_           2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             cEEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEE
Confidence            46899999999999999999999999999999999989988899999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc---CCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES---IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |||++++.+|+.+..|+..+........|+++|+||.|+.+   .+.+..+++.++++..+++|++|||++|.||+++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~  161 (170)
T d1ek0a_          82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFL  161 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHH
Confidence            99999999999999999888887777889999999999854   467888999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          172 IVIREI  177 (222)
Q Consensus       172 ~i~~~~  177 (222)
                      .|++++
T Consensus       162 ~i~~~i  167 (170)
T d1ek0a_         162 GIGEKI  167 (170)
T ss_dssp             HHHTTS
T ss_pred             HHHHHh
Confidence            887643

>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=100.00  E-value=1.5e-33  Score=206.85  Aligned_cols=163  Identities=36%  Similarity=0.587  Sum_probs=146.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|+++||||||+++|+++.+...+.++.+..+... +...+..+.+.+||++|.+.+...+..+++.++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEE-EEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccc-eeeeceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            468999999999999999999999998888888877665544 5578888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIV  173 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i  173 (222)
                      |||++++.+|+.+..|+..+..... .++|+++|+||+|+.. +.+..+++++++...+++|++|||++|.||+++|.+|
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i  159 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTL  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             eecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHH
Confidence            9999999999999999999877643 5689999999999864 5677889999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          174 IREIYS  179 (222)
Q Consensus       174 ~~~~~~  179 (222)
                      ++.+.+
T Consensus       160 ~~~i~~  165 (166)
T d1ctqa_         160 VREIRQ  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            998764

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {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: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.9e-33  Score=207.06  Aligned_cols=165  Identities=45%  Similarity=0.762  Sum_probs=143.7

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      +..+||+++|+++||||||+++++.+.+... +.++.+.++....+..++..+.+.+|||+|++.+..++..+++.+|++
T Consensus         4 d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~   83 (170)
T d2g6ba1           4 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHAL   83 (170)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEE
T ss_pred             ceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCcee
Confidence            5678999999999999999999999887554 456667788888888999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      ++|||++++.+|..+..|+..+........|+++|+||.|+.....+..+++..++..++++|++|||++|.||+++|.+
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~  163 (170)
T d2g6ba1          84 LLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTA  163 (170)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHH
Confidence            99999999999999999998887777778899999999999988899999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 040481          173 VIREIY  178 (222)
Q Consensus       173 i~~~~~  178 (222)
                      |++.+.
T Consensus       164 l~~~i~  169 (170)
T d2g6ba1         164 IAKELK  169 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHcC
Confidence            998765

>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=100.00  E-value=1.6e-33  Score=208.81  Aligned_cols=161  Identities=32%  Similarity=0.468  Sum_probs=140.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      .||+|+|++|||||||+++|..+.+...+.++.+ +........++..+.+.+||++|++.+...+..+++.+|++|+||
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~   81 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCF   81 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhhc
Confidence            6999999999999999999999999888888865 455566778889999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEEccCCC
Q 040481           97 DITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEG-LFFMETSALDS  163 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~~~  163 (222)
                      |+++++||+.+..|+..+......++|++||+||+|+.+.            +.+..+++..++...+ .+|++|||++|
T Consensus        82 d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~  161 (177)
T d1kmqa_          82 SIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK  161 (177)
T ss_dssp             ETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTC
T ss_pred             ccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCC
Confidence            9999999999877554444444467899999999999642            4578889999999988 58999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIY  178 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~  178 (222)
                      .||+++|+.+++.++
T Consensus       162 ~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         162 DGVREVFEMATRAAL  176 (177)
T ss_dssp             TTHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHh
Confidence            999999999998876

>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=100.00  E-value=1.2e-33  Score=207.34  Aligned_cols=164  Identities=46%  Similarity=0.849  Sum_probs=146.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|+++||||||+++|+.+.+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++|+|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ||++++.+|+.+..|+..+........|++++++|.|+.. +....+++..++..++++|++|||++|.||+++|++|++
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~  160 (166)
T d1g16a_          82 YDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAK  160 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHH
T ss_pred             EECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHHH
Confidence            9999999999999999888888878889999999999865 667788999999999999999999999999999999999


Q ss_pred             HHHHH
Q 040481          176 EIYSN  180 (222)
Q Consensus       176 ~~~~~  180 (222)
                      .+.++
T Consensus       161 ~i~~k  165 (166)
T d1g16a_         161 LIQEK  165 (166)
T ss_dssp             HHHHT
T ss_pred             HHHhc
Confidence            87654

>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=100.00  E-value=6.8e-33  Score=205.37  Aligned_cols=168  Identities=46%  Similarity=0.807  Sum_probs=153.9

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      +..+++||+++|+++||||||+++|.++.+...+.++.+.......+.+++..+.+.+||+||++.+..++..++..+|+
T Consensus         3 ~~~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T d1x3sa1           3 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQG   82 (177)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCE
T ss_pred             cccceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            34677999999999999999999999999988888888888888888899999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHSD-TTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      +|+|||++++.+++.+..|+..+..... ...|+++++||.|... +.+..+++.+++..++++|+++||++|.||+++|
T Consensus        83 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f  161 (177)
T d1x3sa1          83 VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAF  161 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEECCCccccccchhhhhhhcccccccceeeEEEeecccccc-ccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999999999999877554 5678889999999754 6788889999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          171 EIVIREIYSN  180 (222)
Q Consensus       171 ~~i~~~~~~~  180 (222)
                      +++++.+++.
T Consensus       162 ~~l~~~l~~~  171 (177)
T d1x3sa1         162 EELVEKIIQT  171 (177)
T ss_dssp             HHHHHHHHTS
T ss_pred             HHHHHHHccC
Confidence            9999988865

>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=100.00  E-value=1.9e-33  Score=206.49  Aligned_cols=163  Identities=33%  Similarity=0.545  Sum_probs=146.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|++|||||||+++|..+.+...+.++.+..+ ...+..++..+.+.+||++|...+...+..+++.+|++|+
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEE
Confidence            468999999999999999999999999888888876544 4556678889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEEccCCCCCHHHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-EGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |||++++.+|+.+..|+..+.... ...+|+++|+||+|+........+++..++.. .+++|++|||++|.||+++|.+
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~  160 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHH
Confidence            999999999999999998876643 46789999999999998888999999999887 4789999999999999999999


Q ss_pred             HHHHHH
Q 040481          173 VIREIY  178 (222)
Q Consensus       173 i~~~~~  178 (222)
                      |++.+.
T Consensus       161 l~~~i~  166 (167)
T d1c1ya_         161 LVRQIN  166 (167)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            998764

>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=100.00  E-value=1.3e-34  Score=213.39  Aligned_cols=161  Identities=29%  Similarity=0.539  Sum_probs=140.9

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|+++||||||+++|..+.+...+.+|.+.++....+..++..+.+.+||++|+..+..++..+++.+|++++|
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIM   82 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhc
Confidence            47999999999999999999999999888889999898888888889999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  175 (222)
                      ||++++++|+.+..|+..+.... ..+|+++|+||+|+......  ++...++...+++|++|||++|.||+++|.+|++
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~  159 (170)
T d1i2ma_          83 FDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR  159 (170)
T ss_dssp             EETTSGGGGTTHHHHHHHHHHHH-CSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHH
T ss_pred             cccccccccchhHHHHHHHhhcc-CCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999998887654 46899999999999764433  3445688889999999999999999999999999


Q ss_pred             HHHH
Q 040481          176 EIYS  179 (222)
Q Consensus       176 ~~~~  179 (222)
                      .++.
T Consensus       160 ~l~~  163 (170)
T d1i2ma_         160 KLIG  163 (170)
T ss_dssp             HHHT
T ss_pred             HHcc
Confidence            8864

>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=100.00  E-value=6.5e-33  Score=204.58  Aligned_cols=167  Identities=28%  Similarity=0.377  Sum_probs=142.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh-hhhHHHhhcCCCEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-RAVTSAYYRGAVGA   92 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~d~v   92 (222)
                      ..+||+++|+++||||||+++|.+..... ...++++.+.....+.+++..+.+.+||+++.... ..++..+++.+|++
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~~~~~~~~~~~~~   81 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAY   81 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeecccccccccccccccccccccee
Confidence            35899999999999999999999877654 34466677788888889999999999998764322 22566789999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHHHH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  171 (222)
                      |+|||++++.+|+.+..|+..+.... ...+|+++|+||+|+.+.+.+..++++.++..++++|++|||++|.||+++|+
T Consensus        82 ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~f~  161 (172)
T d2g3ya1          82 LIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFE  161 (172)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             eeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHHHH
Confidence            99999999999999999998887654 36799999999999998888999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 040481          172 IVIREIYSNV  181 (222)
Q Consensus       172 ~i~~~~~~~~  181 (222)
                      .|++.+..++
T Consensus       162 ~l~~~i~~rr  171 (172)
T d2g3ya1         162 GIVRQVRLRR  171 (172)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHcc
Confidence            9999887664

>d2ngra_ c.37.1.8 (A:) CDC42 {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: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.2e-33  Score=208.44  Aligned_cols=163  Identities=26%  Similarity=0.391  Sum_probs=141.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..+||+++|++|||||||+++|..+.+...+.++.+ .........++..+.+.+||++|++.+...+..+++.+|++|+
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   80 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLV   80 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeec
Confidence            368999999999999999999999999888888876 4445666678889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHc-CCeEEEEccC
Q 040481           95 VYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAE-GLFFMETSAL  161 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~-~~~~~~~sa~  161 (222)
                      |||+++++||+.+..|+.........+.|+++|+||.|+.+            .+.+..+++..++... +++|++|||+
T Consensus        81 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  160 (191)
T d2ngra_          81 CFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSAL  160 (191)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTT
T ss_pred             ccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCC
Confidence            99999999999998765555444456799999999999853            2458889999999886 5789999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIREIY  178 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~~  178 (222)
                      +|.||+++|+.++..++
T Consensus       161 ~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         161 TQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             TCTTHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHh
Confidence            99999999998887654

>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=100.00  E-value=2.4e-32  Score=201.82  Aligned_cols=166  Identities=40%  Similarity=0.735  Sum_probs=147.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCE
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVG   91 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   91 (222)
                      .+.+.+||+++|+++||||||+++|..+.+...+.++.+..........++..+.+.+||++|...+...+..++..+|+
T Consensus         2 ~~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~   81 (174)
T d1wmsa_           2 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDC   81 (174)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccce
Confidence            56788999999999999999999999999988888988888888888889999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEEccCCCCCH
Q 040481           92 ALIVYDITRRTTFDSISRWLDELKTHS----DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE-GLFFMETSALDSTNV  166 (222)
Q Consensus        92 vi~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i  166 (222)
                      ++++||++++.+|+.+..|+..+....    ...+|+++|+||.|+.+ +.+..+++++++... .++|++|||++|.||
T Consensus        82 ~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI  160 (174)
T d1wmsa_          82 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNV  160 (174)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTH
T ss_pred             EEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCH
Confidence            999999999999999999998775532    35689999999999965 678889999999876 589999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIY  178 (222)
Q Consensus       167 ~~~~~~i~~~~~  178 (222)
                      +++|++|++.++
T Consensus       161 ~e~f~~l~~~il  172 (174)
T d1wmsa_         161 AAAFEEAVRRVL  172 (174)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999999876

>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=100.00  E-value=1.5e-32  Score=201.20  Aligned_cols=159  Identities=42%  Similarity=0.776  Sum_probs=144.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh-hHHHhhcCCCEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA-VTSAYYRGAVGAL   93 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~vi   93 (222)
                      +.+||+++|++|||||||+++|..+.+...+.++.+................+.+||++|...+.. .+..++..+|++|
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            368999999999999999999999999998889888888888888999999999999999877654 5778899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCC---CCCHHHH
Q 040481           94 IVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALD---STNVKSA  169 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~~  169 (222)
                      +|||++++++|+.+..|+..+.... ..++|++||+||+|+.+.+.+..++++.+++.++++|++|||++   +.||+++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~  160 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAI  160 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHH
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHH
Confidence            9999999999999999999887754 36789999999999998888999999999999999999999987   5699999


Q ss_pred             HHHH
Q 040481          170 FEIV  173 (222)
Q Consensus       170 ~~~i  173 (222)
                      |.+|
T Consensus       161 F~~l  164 (165)
T d1z06a1         161 FMTL  164 (165)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            9876

>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=100.00  E-value=1.1e-32  Score=203.72  Aligned_cols=166  Identities=39%  Similarity=0.693  Sum_probs=131.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      .+||+++|+++||||||+++|.++.+...+.++.+.......... +.....+.+||++|++.+...+..+++.++++++
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   81 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVL   81 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEE
Confidence            589999999999999999999999988888877776666555554 3455678999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhc----CCCCCcEEEEEeCCCCCcCC-CCCHHHHHHHHHHcC-CeEEEEccCCCCCHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTH----SDTTVARMLVGNKCDLESIR-NVSTEEGKSLAEAEG-LFFMETSALDSTNVKS  168 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~----~~~~~p~iiv~nK~Dl~~~~-~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~  168 (222)
                      |||++++.+|+.+..|+..+...    ....+|+++|+||+|+.+.+ .+..+++++++...+ ++|++|||++|.||++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e  161 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDT  161 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHH
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHH
Confidence            99999999999999999887653    23578999999999998654 467788899998885 8899999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 040481          169 AFEIVIREIYSNV  181 (222)
Q Consensus       169 ~~~~i~~~~~~~~  181 (222)
                      +|.+|++.++++.
T Consensus       162 ~f~~l~~~~l~~~  174 (175)
T d1ky3a_         162 AFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999888764

>d1mh1a_ c.37.1.8 (A:) Rac {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: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.9e-32  Score=204.03  Aligned_cols=163  Identities=30%  Similarity=0.529  Sum_probs=140.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ...+||+|+|++|||||||+++|+.+.+...+.++.+ +.....+..++..+.+.+||++|++.+...+..+++.+|++|
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhhhcccccceee
Confidence            4569999999999999999999999999888888866 445566778999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEEc
Q 040481           94 IVYDITRRTTFDSISR-WLDELKTHSDTTVARMLVGNKCDLESI------------RNVSTEEGKSLAEAEG-LFFMETS  159 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~s  159 (222)
                      +|||++++.+|+++.. |...+... ..++|+++|+||+|+.+.            ......+...++..++ ++|++||
T Consensus        82 lv~d~~~~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~S  160 (183)
T d1mh1a_          82 ICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  160 (183)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             eeeccchHHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcC
Confidence            9999999999999976 55555444 457899999999998532            3456667888888877 7899999


Q ss_pred             cCCCCCHHHHHHHHHHHHH
Q 040481          160 ALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       160 a~~~~~i~~~~~~i~~~~~  178 (222)
                      |++|.||+++|..+++.++
T Consensus       161 Ak~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         161 ALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             TTTCTTHHHHHHHHHHHHS
T ss_pred             CCCCcCHHHHHHHHHHHHc
Confidence            9999999999999998875

>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=100.00  E-value=8.5e-33  Score=206.06  Aligned_cols=168  Identities=38%  Similarity=0.686  Sum_probs=148.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|.+|||||||+++|+++.+...+.++.+.++........+..+.+.+||++|...+...+..++..+|++++|
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            47999999999999999999999999988999999999988888899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEEccCCCCCHHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTHS----DTTVARMLVGNKCDLESIRNVSTEEGKSLAE-AEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      ||.++..+++.+..|+..+....    ...+|+++|+||+|+.+ +.+..++...++. ..+++|++|||++|.||+++|
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f  160 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAF  160 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHH
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHH
Confidence            99999999999999998775543    24689999999999876 4566666666664 468999999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q 040481          171 EIVIREIYSNVSRK  184 (222)
Q Consensus       171 ~~i~~~~~~~~~~~  184 (222)
                      .++++.+++++.+.
T Consensus       161 ~~l~~~i~~~~~~~  174 (184)
T d1vg8a_         161 QTIARNALKQETEV  174 (184)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccc
Confidence            99999988876543

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {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: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.8e-32  Score=201.16  Aligned_cols=163  Identities=31%  Similarity=0.467  Sum_probs=140.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      ..||+++|++|||||||++++..+.+...+.|+.+ +.....+..++..+.+++||++|++.+...+..+++.+|++|+|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-ecccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            47999999999999999999999999888888765 44455566788999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEEEccCC
Q 040481           96 YDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES------------IRNVSTEEGKSLAEAEG-LFFMETSALD  162 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~~  162 (222)
                      ||+++++||+.+..|+.........+.|+++||||+|+..            .+.+..++...+++..+ ++|++|||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~  160 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQ  160 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTT
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCC
Confidence            9999999999997765554444445789999999999853            35688899999999886 5899999999


Q ss_pred             CC-CHHHHHHHHHHHHHH
Q 040481          163 ST-NVKSAFEIVIREIYS  179 (222)
Q Consensus       163 ~~-~i~~~~~~i~~~~~~  179 (222)
                      |. +++++|+.++..++.
T Consensus       161 ~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         161 SENSVRDIFHVATLACVN  178 (179)
T ss_dssp             BHHHHHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHhc
Confidence            98 599999999998764

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G 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: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.7e-30  Score=191.96  Aligned_cols=163  Identities=22%  Similarity=0.331  Sum_probs=135.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|+++||||||++++.++.+... .++.+ +.....+.+++..+.+.+||++|+..+     .+++.+|++|+
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~~-~~t~~-~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~il   76 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQVL-EKTES-EQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIF   76 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCCC-CCSSC-EEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCCc-CCccc-eeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEE
Confidence            469999999999999999999999987543 34434 334566778999999999999998765     36888999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHH-cCCeEEEEccCCCCCHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTHS---DTTVARMLVGNKCDLE--SIRNVSTEEGKSLAEA-EGLFFMETSALDSTNVKS  168 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~iiv~nK~Dl~--~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~  168 (222)
                      |||++++.||+.+..|+..+....   ...+|+++|+||.|+.  ..+.+..+++..++.. .+++|++|||++|.||++
T Consensus        77 Vfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~  156 (175)
T d2bmja1          77 VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDR  156 (175)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHH
T ss_pred             EeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHH
Confidence            999999999999999988875543   3668999999998875  3456778888888655 578999999999999999


Q ss_pred             HHHHHHHHHHHHhhhh
Q 040481          169 AFEIVIREIYSNVSRK  184 (222)
Q Consensus       169 ~~~~i~~~~~~~~~~~  184 (222)
                      +|..+++.++..+.++
T Consensus       157 ~F~~l~~~i~~~~~~~  172 (175)
T d2bmja1         157 VFQEVAQKVVTLRKQQ  172 (175)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhc
Confidence            9999999998876553

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [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), ARL8A [TaxId: 9606]

Probab=99.97  E-value=1.2e-30  Score=190.90  Aligned_cols=155  Identities=20%  Similarity=0.365  Sum_probs=126.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      ++||+++|+++||||||+++|.++.+...+.||.+.++.  .+..++  +.+++||+||+..+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeeee--EEEEEeeccccccccccccccccccchhhcc
Confidence            589999999999999999999999988888887765443  344444  6788999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHH-----HHHcCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSL-----AEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ||+++..+|+....|+..+... ...++|++||+||.|+.+..  ...+..+.     +...+++++++||++|.|++++
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~  155 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDIT  155 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhh--hHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHH
Confidence            9999999999998887766544 34679999999999986432  22222222     2234567999999999999999


Q ss_pred             HHHHHHH
Q 040481          170 FEIVIRE  176 (222)
Q Consensus       170 ~~~i~~~  176 (222)
                      |++|+++
T Consensus       156 ~~~l~~~  162 (164)
T d1zd9a1         156 LQWLIQH  162 (164)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHc
Confidence            9999874

>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=99.96  E-value=2.1e-29  Score=186.01  Aligned_cols=159  Identities=23%  Similarity=0.354  Sum_probs=123.8

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCC
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAV   90 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   90 (222)
                      .+++..+||+++|+++||||||+++|.++.+... .++.+  +....+...+  +.+.+||++|++.+...+..++..+|
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~-~~~~~--~~~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~   85 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDISHI-TPTQG--FNIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTD   85 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEE-EEETT--EEEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCS
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcc-eeeee--eeEEEeccCC--eeEeEeeccccccchhHHHHHhhccc
Confidence            3455679999999999999999999988776432 22333  3344444444  66889999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHH-----HHHcCCeEEEEccCCCC
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSL-----AEAEGLFFMETSALDST  164 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~  164 (222)
                      ++|+|||+++..++..+..|+..+.... ...+|++||+||+|+.+...  .....+.     +....+++++|||++|.
T Consensus        86 ~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  163 (176)
T d1fzqa_          86 ILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGE  163 (176)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCT
T ss_pred             eeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCC
Confidence            9999999999999999988877765543 36789999999999975322  2222221     22335679999999999


Q ss_pred             CHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIRE  176 (222)
Q Consensus       165 ~i~~~~~~i~~~  176 (222)
                      |++++|+||++.
T Consensus       164 gv~e~~~~l~~~  175 (176)
T d1fzqa_         164 GVQDGMNWVCKN  175 (176)
T ss_dssp             THHHHHHHHHHT
T ss_pred             CHHHHHHHHHhc
Confidence            999999999875

>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=99.96  E-value=2.1e-29  Score=184.17  Aligned_cols=157  Identities=20%  Similarity=0.365  Sum_probs=122.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|++|||||||+++|.+..+. ...++.+.  ....+...+  +.+.+||+||++.+...+..++..++++++|
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGF--NIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSE--EEEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEee--eeeeccccc--cceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            589999999999999999999887653 34455443  333444444  6788999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHH-hcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLDELK-THSDTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~-~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ||+++..++.....++..+. .....+.|++||+||.|+.+....  ++.....     ...++++++|||++|+||.++
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~  154 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC--NAIQEALELDSIRSHHWRIQGCSAVTGEDLLPG  154 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             eecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCH--HHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHH
Confidence            99999999988877665543 334467899999999999753332  3222221     122467999999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          170 FEIVIREIYS  179 (222)
Q Consensus       170 ~~~i~~~~~~  179 (222)
                      |++|++++.+
T Consensus       155 ~~~l~~~i~~  164 (165)
T d1ksha_         155 IDWLLDDISS  164 (165)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHc
Confidence            9999998764

>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=99.96  E-value=8.9e-30  Score=189.18  Aligned_cols=161  Identities=22%  Similarity=0.356  Sum_probs=121.3

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGA   92 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~v   92 (222)
                      ....+||+++|++|||||||+++|.+..+.. ..++.+....  .....  .+.+.+||++|++.+...+..++..+|++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~~~i   88 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNVE--TLSYK--NLKLNVWDLGGQTSIRPYWRCYYADTAAV   88 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCEE--EEEET--TEEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEEE--EEeeC--CEEEEEEecccccccchhHHhhhccceeE
Confidence            4457999999999999999999998776533 2344443332  33334  36788999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH-----HHHcCCeEEEEccCCCCCH
Q 040481           93 LIVYDITRRTTFDSISRWLDELKT-HSDTTVARMLVGNKCDLESIRNVSTEEGKSL-----AEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i  166 (222)
                      ++|||+++..++.....|+..+.. ....+.|++||+||+|+.+  ....+++.+.     +...++.+++|||++|+||
T Consensus        89 i~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv  166 (182)
T d1moza_          89 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG--ALSASEVSKELNLVELKDRSWSIVASSAIKGEGI  166 (182)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTT--CCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTH
T ss_pred             EEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccc--ccCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCH
Confidence            999999999999999888766544 3446789999999999964  2333333322     2334567999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040481          167 KSAFEIVIREIYSN  180 (222)
Q Consensus       167 ~~~~~~i~~~~~~~  180 (222)
                      +++|++|++.+.++
T Consensus       167 ~e~~~~l~~~i~~~  180 (182)
T d1moza_         167 TEGLDWLIDVIKEE  180 (182)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999988664

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [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), ARF6 [TaxId: 9606]

Probab=99.95  E-value=4e-29  Score=184.19  Aligned_cols=155  Identities=19%  Similarity=0.359  Sum_probs=119.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEE
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIV   95 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v   95 (222)
                      .+||+++|+++||||||+++|..+..... .++.+..  .......  .+.+.+||+||...+...+..+++.++++|+|
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~~~~~~~-~~t~~~~--~~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v   86 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKLGQSVTT-IPTVGFN--VETVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   86 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTCCCCEEE-EEETTEE--EEEEEET--TEEEEEEEESCCGGGHHHHGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCc-cceeeee--EEEeecc--ceeeEEecCCCcchhhhHHHhhhcccceEEEE
Confidence            58999999999999999999987764332 2333332  2333333  46788999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHH-----HHHHcCCeEEEEccCCCCCHHHH
Q 040481           96 YDITRRTTFDSISRWLDELKT-HSDTTVARMLVGNKCDLESIRNVSTEEGKS-----LAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus        96 ~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      ||+++..++..+..|+..+.. ......|+++|+||+|+.+.  ....++..     .+...++.+++|||++|+||+++
T Consensus        87 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~  164 (173)
T d1e0sa_          87 VDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEG  164 (173)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHH
T ss_pred             EecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccc--ccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHH
Confidence            999999999999887766544 34467899999999999743  22222222     22233667999999999999999


Q ss_pred             HHHHHHHH
Q 040481          170 FEIVIREI  177 (222)
Q Consensus       170 ~~~i~~~~  177 (222)
                      |++|.+++
T Consensus       165 ~~~l~~~~  172 (173)
T d1e0sa_         165 LTWLTSNY  172 (173)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhc
Confidence            99998753

>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=99.95  E-value=2.1e-27  Score=172.02  Aligned_cols=156  Identities=17%  Similarity=0.293  Sum_probs=121.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEE
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVY   96 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~   96 (222)
                      +||+++|++|||||||+++|.++.+...........     ...+...+.+.+||++|...+...+..++..++++++++
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNV-----ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCE-----EEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeEE-----EEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            589999999999999999999888765544332221     223445577889999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCC---HHHHHHHHHHcCCeEEEEccCCCCCHHHHHHH
Q 040481           97 DITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVS---TEEGKSLAEAEGLFFMETSALDSTNVKSAFEI  172 (222)
Q Consensus        97 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~  172 (222)
                      |+.++.++..+..|+..+.... ....|+++++||.|+.+.....   .+....++...++++++|||++|.||+++|++
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~  155 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDW  155 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHH
Confidence            9999999999988877765544 3668999999999987532211   11112233445778999999999999999999


Q ss_pred             HHHHH
Q 040481          173 VIREI  177 (222)
Q Consensus       173 i~~~~  177 (222)
                      |++++
T Consensus       156 l~~~l  160 (160)
T d1r8sa_         156 LSNQL  160 (160)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            98763

>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=99.92  E-value=6e-25  Score=161.76  Aligned_cols=156  Identities=22%  Similarity=0.354  Sum_probs=114.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..+||+++|.+|||||||+++|.+..+..... +.+..  .......  .+.+.+||++|.+.....+..++..++++++
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~-~~~~~--~~~~~~~--~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~   88 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIGSN--VEEIVIN--NTRFLMWDIGGQESLRSSWNTYYTNTEFVIV   88 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCEEEEC-CSCSS--CEEEEET--TEEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCcccc-cccee--EEEEeec--ceEEEEeccccccccccchhhhhccceeeee
Confidence            45899999999999999999999987653322 22211  1222223  3567899999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEEccCCCCCHHH
Q 040481           95 VYDITRRTTFDSISRWLDELKTH-SDTTVARMLVGNKCDLESIRNVSTEEGKSLA-----EAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~  168 (222)
                      ++|.++..++.....++...... .....|+++|+||+|+....  ...+..+..     ...+++++++||++|+|+++
T Consensus        89 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e  166 (177)
T d1zj6a1          89 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM--TVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQ  166 (177)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             ecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccC--cHHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHH
Confidence            99999999998886665554443 33678999999999986432  223333222     23456799999999999999


Q ss_pred             HHHHHHHHH
Q 040481          169 AFEIVIREI  177 (222)
Q Consensus       169 ~~~~i~~~~  177 (222)
                      +|++|++++
T Consensus       167 ~~~~L~~~l  175 (177)
T d1zj6a1         167 GLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999875

>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=99.91  E-value=2.9e-24  Score=156.36  Aligned_cols=160  Identities=23%  Similarity=0.328  Sum_probs=120.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ..+||+++|++|||||||+++|.++.+... .++.+  .........+  +.+.+||.+|.......+...+..++++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   78 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccc--eeeeeeccCc--eEEEEeeccccccccccchhhhhhhhhhhh
Confidence            348999999999999999999999887543 23323  2333333344  567799999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHH-HHhcCCCCCcEEEEEeCCCCCcCCCC---CHHHHHHHHHHcCCeEEEEccCCCCCHHHHH
Q 040481           95 VYDITRRTTFDSISRWLDE-LKTHSDTTVARMLVGNKCDLESIRNV---STEEGKSLAEAEGLFFMETSALDSTNVKSAF  170 (222)
Q Consensus        95 v~d~~~~~s~~~~~~~~~~-i~~~~~~~~p~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  170 (222)
                      ++|+.+..++.....++.. +........|+++++||.|+.+....   ..+....++...+++|++|||++|.||+++|
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~  158 (169)
T d1upta_          79 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAM  158 (169)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHH
T ss_pred             hhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHH
Confidence            9999998888887665444 44444567899999999999753321   1111222344457889999999999999999


Q ss_pred             HHHHHHHHH
Q 040481          171 EIVIREIYS  179 (222)
Q Consensus       171 ~~i~~~~~~  179 (222)
                      ++|++.+.+
T Consensus       159 ~~l~~~l~~  167 (169)
T d1upta_         159 EWLVETLKS  167 (169)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999887754

>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=99.91  E-value=4.8e-23  Score=149.03  Aligned_cols=151  Identities=21%  Similarity=0.274  Sum_probs=116.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYD   97 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d   97 (222)
                      ||+++|+++||||||+++|.++.+.. ..++.+...  ....+.  ...+.+||++|...+...+..++..++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPTS--EELAIG--NIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-CCCCCSCEE--EEECCT--TCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCe-eeceeeEeE--EEeccC--CeeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            79999999999999999999987643 344444333  233333  3557799999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH------------HHcCCeEEEEccCCCC
Q 040481           98 ITRRTTFDSISRWLDELKTHS-DTTVARMLVGNKCDLESIRNVSTEEGKSLA------------EAEGLFFMETSALDST  164 (222)
Q Consensus        98 ~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~------------~~~~~~~~~~sa~~~~  164 (222)
                      .++..++.....|+..+.... ....|++++++|.|+..  .....+..+..            ....+.+++|||++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  154 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRN  154 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSS--CCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTB
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccc--cCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCC
Confidence            999999888877776665544 46789999999999864  23333333222            1224569999999999


Q ss_pred             CHHHHHHHHHH
Q 040481          165 NVKSAFEIVIR  175 (222)
Q Consensus       165 ~i~~~~~~i~~  175 (222)
                      |++|+|+||.+
T Consensus       155 Gv~e~~~~l~~  165 (166)
T d2qtvb1         155 GYLEAFQWLSQ  165 (166)
T ss_dssp             SHHHHHHHHTT
T ss_pred             CHHHHHHHHhC
Confidence            99999999875

>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=99.90  E-value=3.9e-23  Score=152.36  Aligned_cols=156  Identities=21%  Similarity=0.146  Sum_probs=107.6

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh--------hhhHHHh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF--------RAVTSAY   85 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~   85 (222)
                      +.-.|+|+|.+|||||||+++|++..... ...+.++...........+  ..+.+||+||....        .......
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~   81 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEA   81 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhcccccccc
Confidence            34479999999999999999999876533 2233333344444444444  45779999996332        2333456


Q ss_pred             hcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEEccCCCC
Q 040481           86 YRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDST  164 (222)
Q Consensus        86 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~  164 (222)
                      +..+|++|+|+|+.++..... ..|...++.. ..+.|+++|+||+|+....   .+....+....+ ..++++||++|.
T Consensus        82 ~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~-~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~  156 (178)
T d1wf3a1          82 LADVNAVVWVVDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDER  156 (178)
T ss_dssp             TSSCSEEEEEEETTSCCCHHH-HHHHHHHGGG-TTTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHH
T ss_pred             cccccceeeeechhhhhcccc-cchhhheecc-ccchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCC
Confidence            789999999999988754332 3344555443 3457999999999986422   233344444443 568999999999


Q ss_pred             CHHHHHHHHHHHH
Q 040481          165 NVKSAFEIVIREI  177 (222)
Q Consensus       165 ~i~~~~~~i~~~~  177 (222)
                      |+++++++|++.+
T Consensus       157 gi~~L~~~i~~~l  169 (178)
T d1wf3a1         157 QVAELKADLLALM  169 (178)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHhC
Confidence            9999999887644

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {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: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=3.1e-24  Score=160.63  Aligned_cols=160  Identities=16%  Similarity=0.157  Sum_probs=123.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|+.|||||||+++|....+  .+.||.|.+..  .+  ....+.+++||++|++.+...+..+++.++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~--~~--~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   74 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEY--PF--DLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMF   74 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEE--EE--ECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEE--EE--eccceeeeeccccccccccccccccccccceeeE
Confidence            368999999999999999999988775  35678776543  23  3344668899999999999999999999999999


Q ss_pred             EEECCChh-----------hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC----------------CCCHHHHHHH
Q 040481           95 VYDITRRT-----------TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR----------------NVSTEEGKSL  147 (222)
Q Consensus        95 v~d~~~~~-----------s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~----------------~~~~~~~~~~  147 (222)
                      ++|.++..           .++.+..|...+........|+++++||.|+.+..                .........+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (200)
T d2bcjq2          75 LVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREF  154 (200)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHH
T ss_pred             eeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHH
Confidence            99998864           45667778888877777889999999999974211                1222333333


Q ss_pred             HHH----------cCCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          148 AEA----------EGLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       148 ~~~----------~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      ...          ..+.+++|||++|.||.++|+.+.+.+++.
T Consensus       155 i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         155 ILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             HHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            221          134578999999999999999888777643

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G 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: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.90  E-value=3.1e-24  Score=155.62  Aligned_cols=150  Identities=23%  Similarity=0.238  Sum_probs=109.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh--------hhhHHHhhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF--------RAVTSAYYR   87 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~   87 (222)
                      +||+++|+++||||||+++|++..... ...+..+.+.....+...+  ..+.+||+||....        ......++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHH
Confidence            799999999999999999999876543 2333333333444444555  45679999994322        122445689


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      .+|++++++|..+..+++....|...+.... .+.|+++|+||+|+.......       .+..+.+++++||++|.|++
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~iilv~NK~Dl~~~~~~~-------~~~~~~~~~~iSAk~~~gi~  151 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKADITGETLGM-------SEVNGHALIRLSARTGEGVD  151 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSC-TTCCEEEEEECHHHHCCCCEE-------EEETTEEEEECCTTTCTTHH
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcc-cccceeeccchhhhhhhHHHH-------HHhCCCcEEEEECCCCCCHH
Confidence            9999999999999888777776666555443 568999999999986532211       12346789999999999999


Q ss_pred             HHHHHHHHH
Q 040481          168 SAFEIVIRE  176 (222)
Q Consensus       168 ~~~~~i~~~  176 (222)
                      +++++|.+.
T Consensus       152 ~L~~~l~~~  160 (161)
T d2gj8a1         152 VLRNHLKQS  160 (161)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999999875

>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=99.90  E-value=2.1e-23  Score=155.46  Aligned_cols=156  Identities=19%  Similarity=0.235  Sum_probs=114.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|+.|||||||+++|....++..     +  .....+..  ..+.+++||++|++.+...+..+++.++++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~-----~--~~~~~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~   71 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGT-----G--IVETHFTF--KDLHFKMFDVGGQRSERKKWIHCFEGVTAIIF   71 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCC-----S--EEEEEEEE--TTEEEEEEEECCSGGGGGGGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCc-----c--EEEEEEEe--eeeeeeeeccccccccccchhhcccCCceeee
Confidence            368999999999999999999987665432     2  22233333  34678899999999999999999999999999


Q ss_pred             EEECCChhhH-----------HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC---------------CCCCHHHHH---
Q 040481           95 VYDITRRTTF-----------DSISRWLDELKTHSDTTVARMLVGNKCDLESI---------------RNVSTEEGK---  145 (222)
Q Consensus        95 v~d~~~~~s~-----------~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~---------------~~~~~~~~~---  145 (222)
                      |+|+++..++           +....|...+........|+++++||.|+...               ......+..   
T Consensus        72 v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (195)
T d1svsa1          72 CVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYI  151 (195)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHH
T ss_pred             EEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHH
Confidence            9999988765           33455666666666678899999999996211               111122221   


Q ss_pred             --HHHHH------cCCeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          146 --SLAEA------EGLFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       146 --~~~~~------~~~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                        .+...      ..+.+++|||+++.||+++|+.+.+.++.
T Consensus       152 ~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         152 QCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             HHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence              11111      13457899999999999999988876654

>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=99.88  E-value=5.6e-23  Score=151.77  Aligned_cols=158  Identities=15%  Similarity=0.125  Sum_probs=104.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCcc-----ce--eEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATI-----GV--EFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYR   87 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~-----~~--~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   87 (222)
                      ..++|+++|++++|||||+|+|++.........+.     +.  ......+...+  ..+.++|+||+..+.......+.
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~l~   81 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAAD   81 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCC--ccccccccccccccccchhhhhh
Confidence            46799999999999999999998644322211111     11  11111222233  45679999999999888888999


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHH----cCCeEEEEccC
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEGKSLAEA----EGLFFMETSAL  161 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~----~~~~~~~~sa~  161 (222)
                      .+|++++|+|+.++........| ..+..   .++|+++|+||+|+.+.....  .+..+.+...    .+.+++++||+
T Consensus        82 ~~d~~ilv~d~~~g~~~~~~~~~-~~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~  157 (179)
T d1wb1a4          82 IIDLALIVVDAKEGPKTQTGEHM-LILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAK  157 (179)
T ss_dssp             SCCEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTT
T ss_pred             hccccccccccccccchhhhhhh-hhhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcc
Confidence            99999999999987543322222 22322   457999999999997533221  1122222222    24679999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 040481          162 DSTNVKSAFEIVIREIY  178 (222)
Q Consensus       162 ~~~~i~~~~~~i~~~~~  178 (222)
                      +|.|++++++.|.+.+-
T Consensus       158 ~g~gi~eL~~~I~~~l~  174 (179)
T d1wb1a4         158 TGFGVDELKNLIITTLN  174 (179)
T ss_dssp             TCTTHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHhcCC
Confidence            99999999998887654

>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=99.88  E-value=2.1e-22  Score=148.68  Aligned_cols=157  Identities=17%  Similarity=0.129  Sum_probs=104.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hhhhHHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FRAVTSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d   90 (222)
                      .|+++|.++||||||+|+|++........+..+....+.... ......+.+||+||...       ........+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~-~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVE-VSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEE-CSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceee-ecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            489999999999999999988765333333333343333332 22334577999999432       1123345678899


Q ss_pred             EEEEEEECCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481           91 GALIVYDITRRT--TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus        91 ~vi~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      ++++++|.....  .+.....|+..... ...++|+++|+||+|+.+...  .+...+.....+.+++++||++|.|+++
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~  158 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDP-ALLRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLPA  158 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCH-HHHHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhhhcccccccccchhhhhhhhhcccc-ccchhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHH
Confidence            999999986542  23333333333221 113469999999999975332  2334455566789999999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          169 AFEIVIREIY  178 (222)
Q Consensus       169 ~~~~i~~~~~  178 (222)
                      +++.|.+.+.
T Consensus       159 L~~~i~~~l~  168 (180)
T d1udxa2         159 LKEALHALVR  168 (180)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9998877654

>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=99.87  E-value=8.8e-22  Score=145.18  Aligned_cols=156  Identities=21%  Similarity=0.270  Sum_probs=110.4

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGAL   93 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi   93 (222)
                      ....||+++|++|||||||+++|.+..+... .++.+...  ..+..++  ..+.+||+.|...+...+...+...++++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   85 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce--eEEEecc--cccccccccchhhhhhHHhhhhcccceee
Confidence            4458999999999999999999998876543 23333322  2334454  34669999999999888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----------------cCCeE
Q 040481           94 IVYDITRRTTFDSISRWLDELKT-HSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-----------------EGLFF  155 (222)
Q Consensus        94 ~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----------------~~~~~  155 (222)
                      +++|+.+...+.....++..... .....+|+++++||.|+..  ......+.+....                 .++.+
T Consensus        86 ~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (186)
T d1f6ba_          86 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  163 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             eeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccc--cCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEE
Confidence            99999999988887655444433 4447789999999999864  2334444433321                 13468


Q ss_pred             EEEccCCCCCHHHHHHHHHHH
Q 040481          156 METSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       156 ~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      ++|||++|+|++++|+||+++
T Consensus       164 ~~~SA~tg~Gi~e~~~~l~~~  184 (186)
T d1f6ba_         164 FMCSVLKRQGYGEGFRWMAQY  184 (186)
T ss_dssp             EECBTTTTBSHHHHHHHHHTT
T ss_pred             EEEeCCCCCCHHHHHHHHHHh
Confidence            999999999999999999874

>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=99.87  E-value=2.2e-22  Score=147.29  Aligned_cols=155  Identities=23%  Similarity=0.233  Sum_probs=99.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcc---------hhhhhHHHhhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQE---------RFRAVTSAYYR   87 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~   87 (222)
                      .|+++|++|||||||+++|++..... ...+..+.......+...  ...+.+||++|..         .+......++.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~   79 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWY--GKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIR   79 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEET--TEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeecccccccccc--ccccccccccceeeeeccccccccccccccccc
Confidence            68999999999999999999866432 122222222222233333  3557799999931         22334556678


Q ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHH
Q 040481           88 GAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVK  167 (222)
Q Consensus        88 ~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  167 (222)
                      .+|+++++++..+...... ..++..+..   .++|+++|+||+|+...  ...+...++.......++++||++|.|++
T Consensus        80 ~ad~i~~~~~~~~~~~~~~-~~~~~~l~~---~~~pviiv~NK~Dl~~~--~~~~~~~~~~~~~~~~~i~iSAk~g~gid  153 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKED-ESLADFLRK---STVDTILVANKAENLRE--FEREVKPELYSLGFGEPIPVSAEHNINLD  153 (171)
T ss_dssp             TCSEEEEEEETTTCCCHHH-HHHHHHHHH---HTCCEEEEEESCCSHHH--HHHHTHHHHGGGSSCSCEECBTTTTBSHH
T ss_pred             cCcEEEEeecccccccccc-ccccccccc---ccccccccchhhhhhhh--hhhHHHHHHHhcCCCCeEEEecCCCCCHH
Confidence            9999999999987755332 344555544   34699999999998632  12222233333445568999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040481          168 SAFEIVIREIYSN  180 (222)
Q Consensus       168 ~~~~~i~~~~~~~  180 (222)
                      +++++|++++.+.
T Consensus       154 ~L~~~i~~~l~e~  166 (171)
T d1mkya1         154 TMLETIIKKLEEK  166 (171)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCC
Confidence            9999999876543

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {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: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.87  E-value=2.1e-22  Score=150.78  Aligned_cols=159  Identities=19%  Similarity=0.238  Sum_probs=108.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      +.+||+++|++|||||||+++|.   +...+.||.|...  ..+.+.  .+.+.+||++|++.+...+..+++.++++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~--~~~~~~--~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~   73 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHE--YDFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILF   73 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEE--EEEEET--TEEEEEEEECC-------CTTSCTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEE--EEEeee--eeeeeeecccceeeecccccccccccceeEE
Confidence            35899999999999999999993   4456677877443  344444  4667899999999999999999999999999


Q ss_pred             EEECCChhh----------HHHHHHHHHH-HHhcCCCCCcEEEEEeCCCCCcC----------------CCCCHHHHHHH
Q 040481           95 VYDITRRTT----------FDSISRWLDE-LKTHSDTTVARMLVGNKCDLESI----------------RNVSTEEGKSL  147 (222)
Q Consensus        95 v~d~~~~~s----------~~~~~~~~~~-i~~~~~~~~p~iiv~nK~Dl~~~----------------~~~~~~~~~~~  147 (222)
                      +++.++..+          ++....|+.. +......++|+++++||.|+.+.                .....+.+.++
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (200)
T d1zcba2          74 LVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKF  153 (200)
T ss_dssp             EEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHH
T ss_pred             EEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHH
Confidence            999988543          3333334433 34444577899999999997321                01122333333


Q ss_pred             HHHc-----------CCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          148 AEAE-----------GLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       148 ~~~~-----------~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      ....           .+.++++||+++.||.++|+.+.+.++..
T Consensus       154 ~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         154 LVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             HHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence            3221           24567899999999999999877766543

>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=99.87  E-value=3e-21  Score=142.93  Aligned_cols=159  Identities=25%  Similarity=0.182  Sum_probs=104.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch------------hhhh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER------------FRAV   81 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------------~~~~   81 (222)
                      ..+||+++|+++||||||+++|++..... ...+.++.......+..++.  .+.++|+||...            ....
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~d~~g~~~~~~~~~~~~~~~~~~~   84 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYR   84 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCCc--eeeeeccCCccccccccccccccchhHH
Confidence            45899999999999999999999876422 22233333333344455554  356889999532            2234


Q ss_pred             HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEE
Q 040481           82 TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEA-----EGLFFM  156 (222)
Q Consensus        82 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~  156 (222)
                      ....++.+|++++|+|+..+..- ....+...+..   .+.|+|+|+||+|+.........+..+....     ..++++
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~-~~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  160 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITR-QDQRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLI  160 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhcCCEEEEeecccccchh-hHHHHHHHHHH---cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEE
Confidence            45567889999999999877542 22334444443   4479999999999875444444443333322     246799


Q ss_pred             EEccCCCCCHHHHHHHHHHHHHHH
Q 040481          157 ETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       157 ~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                      ++||++|.|++++++.|.+ .++.
T Consensus       161 ~vSa~~g~gv~~L~~~i~~-~~~~  183 (186)
T d1mkya2         161 FTSADKGWNIDRMIDAMNL-AYAS  183 (186)
T ss_dssp             ECBTTTTBSHHHHHHHHHH-HHHH
T ss_pred             EEeCCCCCCHHHHHHHHHH-HHHh
Confidence            9999999999999998855 4443

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

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 engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.86  E-value=2.2e-21  Score=143.35  Aligned_cols=150  Identities=19%  Similarity=0.162  Sum_probs=97.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch---------------hhhhH
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER---------------FRAVT   82 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------------~~~~~   82 (222)
                      .|+++|++|||||||+|+|++........+.++.+.  ..+...+    +.+||+||...               +....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~--~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeecc--ccccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            689999999999999999998776544444333332  2333333    56899999421               12223


Q ss_pred             HHhhcCCCEEEEEEECCChhhHHHH----------HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC
Q 040481           83 SAYYRGAVGALIVYDITRRTTFDSI----------SRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG  152 (222)
Q Consensus        83 ~~~~~~~d~vi~v~d~~~~~s~~~~----------~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~  152 (222)
                      ...++.+|++++|+|+.........          .+.++.+..   .++|+++|+||+|+....+   .....+.....
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~~p~iiv~NK~D~~~~~~---~~~~~~~~~~~  149 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIKNVQ---EVINFLAEKFE  149 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCSCHH---HHHHHHHHHHT
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cCCCEEEEEeeeehhhhHH---HHHHHHHHHhc
Confidence            3456789999999999765322111          112222322   4579999999999864222   12222222222


Q ss_pred             -------CeEEEEccCCCCCHHHHHHHHHHHHHH
Q 040481          153 -------LFFMETSALDSTNVKSAFEIVIREIYS  179 (222)
Q Consensus       153 -------~~~~~~sa~~~~~i~~~~~~i~~~~~~  179 (222)
                             ..++++||++|.|++++++.|.+.+.+
T Consensus       150 ~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         150 VPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             CCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence                   238899999999999999999887664

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {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: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.86  E-value=7.7e-22  Score=142.66  Aligned_cols=149  Identities=23%  Similarity=0.261  Sum_probs=101.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCC-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch--------h-hhhHHHhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNP-HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER--------F-RAVTSAYY   86 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~-~~~~~~~~   86 (222)
                      +||+++|.++||||||+|+|++..... ...+..+.......+...+  ..+.+||+||...        . .......+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            699999999999999999999876432 2233333333334444555  4567999999421        1 12233456


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCH
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNV  166 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  166 (222)
                      ..+|++++|+|++++.......-+ ..+     ...++++++||.|+.+.  ...++..+ ....+.+++++||++|.||
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~-~~~-----~~~~~i~~~~k~d~~~~--~~~~~~~~-~~~~~~~~~~vSA~~g~gi  149 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKIL-ERI-----KNKRYLVVINKVDVVEK--INEEEIKN-KLGTDRHMVKISALKGEGL  149 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHH-HHH-----TTSSEEEEEEECSSCCC--CCHHHHHH-HHTCSTTEEEEEGGGTCCH
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhh-hhc-----ccccceeeeeeccccch--hhhHHHHH-HhCCCCcEEEEECCCCCCH
Confidence            889999999999998764443222 222     33588999999999753  23333322 2234678999999999999


Q ss_pred             HHHHHHHHHH
Q 040481          167 KSAFEIVIRE  176 (222)
Q Consensus       167 ~~~~~~i~~~  176 (222)
                      +++++.|.++
T Consensus       150 ~~L~~~I~ke  159 (160)
T d1xzpa2         150 EKLEESIYRE  159 (160)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999987653

>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=99.85  E-value=8.5e-22  Score=150.65  Aligned_cols=163  Identities=16%  Similarity=0.149  Sum_probs=103.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEE----------------EECCeEEEEEEEeCCCcchhhh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSM----------------EIDGKEVKAQIWDTAGQERFRA   80 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~i~D~~G~~~~~~   80 (222)
                      +.|+|+|++++|||||+++|++...........+........                .+......+.++||||+..|..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~   85 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT   85 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccc
Confidence            459999999999999999998754322111111111011111                1122344678999999999887


Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH-------------------
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST-------------------  141 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~-------------------  141 (222)
                      .....+..+|++|+|+|+.++-.-.. ...+..+..   .++|+|+++||+|+.+......                   
T Consensus        86 ~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~  161 (227)
T d1g7sa4          86 LRKRGGALADLAILIVDINEGFKPQT-QEALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKL  161 (227)
T ss_dssp             SBCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHH
T ss_pred             cchhcccccceEEEEEecccCcccch-hHHHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHH
Confidence            77778899999999999988754333 233333333   4579999999999865332110                   


Q ss_pred             -HHHH----HHHHH--------------cCCeEEEEccCCCCCHHHHHHHHHHHHHHHhhh
Q 040481          142 -EEGK----SLAEA--------------EGLFFMETSALDSTNVKSAFEIVIREIYSNVSR  183 (222)
Q Consensus       142 -~~~~----~~~~~--------------~~~~~~~~sa~~~~~i~~~~~~i~~~~~~~~~~  183 (222)
                       ....    .+...              ..++++++||.+|.|++++++.+.....+...+
T Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~~  222 (227)
T d1g7sa4         162 DTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLRE  222 (227)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCSG
T ss_pred             HHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHHH
Confidence             0000    11110              124689999999999999999877765544433

>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=99.84  E-value=4e-20  Score=138.07  Aligned_cols=162  Identities=16%  Similarity=0.143  Sum_probs=106.0

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC---CCCcccee--EEEEEEE-------------------ECCeEEEEE
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH---SKATIGVE--FQTQSME-------------------IDGKEVKAQ   68 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~---~~~~~~~~--~~~~~~~-------------------~~~~~~~~~   68 (222)
                      +++.++|+++|+.++|||||+++|++......   .....+.+  +......                   .......+.
T Consensus         2 ~~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (195)
T d1kk1a3           2 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   81 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEe
Confidence            56789999999999999999999987432211   11111111  1111111                   011345688


Q ss_pred             EEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHH
Q 040481           69 IWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEGKS  146 (222)
Q Consensus        69 i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~  146 (222)
                      ++|+||+..|.......+..+|++++|+|+.++.......+.+..+....  ..+++++.||+|+.+.....  .....+
T Consensus        82 ~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~~~~~~~~  159 (195)
T d1kk1a3          82 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIKE  159 (195)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHH
T ss_pred             eeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHHHHHHHHH
Confidence            99999999998888888899999999999998743333333333343332  13567889999987533221  222333


Q ss_pred             HHHHc---CCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          147 LAEAE---GLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       147 ~~~~~---~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      +....   .++++++||++|+|++++++.+.+.
T Consensus       160 ~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~  192 (195)
T d1kk1a3         160 FIEGTVAENAPIIPISALHGANIDVLVKAIEDF  192 (195)
T ss_dssp             HHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HhccccCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            33332   4679999999999999988877653

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {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: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.84  E-value=1e-19  Score=136.85  Aligned_cols=116  Identities=16%  Similarity=0.241  Sum_probs=86.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh-hhHHHhhcCCCEEEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR-AVTSAYYRGAVGALIVY   96 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~vi~v~   96 (222)
                      +|+|+|+++||||||+++|++..+...+ ++.+.+.....+ .+...+.+.+||++|++.+. ..+..++..++++++|+
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~~-~t~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKV-NNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCBC-CCCSCEEEEEEC-SSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCccc-CCeeEEEEEEEE-eeeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            6999999999999999999998875543 444444433322 24456778999999998875 56778889999999999


Q ss_pred             ECCChhhH-HHHHHHHHH-HHh--cCCCCCcEEEEEeCCCCCc
Q 040481           97 DITRRTTF-DSISRWLDE-LKT--HSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        97 d~~~~~s~-~~~~~~~~~-i~~--~~~~~~p~iiv~nK~Dl~~  135 (222)
                      |+++..++ ....+|+.. +..  .....+|++|++||+|+..
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~  122 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM  122 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTT
T ss_pred             EcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCC
Confidence            99998763 444444433 322  2345689999999999975

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {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: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.83  E-value=2.1e-21  Score=143.76  Aligned_cols=156  Identities=16%  Similarity=0.044  Sum_probs=98.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh----hh---hHHHhhcCCC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF----RA---VTSAYYRGAV   90 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~---~~~~~~~~~d   90 (222)
                      +|+|+|++|||||||+|+|++........+..+.+.......+.+ ...+.+||+||....    ..   .....+..++
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR   81 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecC-CcEEEEecCCCcccCchHHHHHHHHHHHHHHHhh
Confidence            699999999999999999988765333333333333333333332 234679999995221    11   1223356688


Q ss_pred             EEEEEEECCChhhHHHH--HH---HHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEEccCCC
Q 040481           91 GALIVYDITRRTTFDSI--SR---WLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAE--GLFFMETSALDS  163 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~--~~---~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~  163 (222)
                      .++++++..........  ..   +..........++|+++|+||+|+.+..    +....+....  +.+++.+||++|
T Consensus        82 ~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~~g  157 (185)
T d1lnza2          82 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTR  157 (185)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCS
T ss_pred             hhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECCCC
Confidence            88888877654322221  11   1222222233568999999999997532    2233333333  678999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREIY  178 (222)
Q Consensus       164 ~~i~~~~~~i~~~~~  178 (222)
                      .|++++++.|++.+.
T Consensus       158 ~Gi~~L~~~i~~~L~  172 (185)
T d1lnza2         158 EGLRELLFEVANQLE  172 (185)
T ss_dssp             STTHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHhhh
Confidence            999999998887653

>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=99.82  E-value=2e-20  Score=139.52  Aligned_cols=157  Identities=15%  Similarity=0.112  Sum_probs=94.6

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC--CCCccceeEEEEEEEECCeEEEEEEEeCCCcch-----------
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH--SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-----------   77 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-----------   77 (222)
                      .|....++|+|+|++|||||||+|+|++......  ..++.+.+.  .......   .+.+.|++|...           
T Consensus        18 ~p~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~--~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~   92 (195)
T d1svia_          18 YPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTL--NFYIIND---ELHFVDVPGYGFAKVSKSEREAW   92 (195)
T ss_dssp             SCCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCE--EEEEETT---TEEEEECCCBCCCSSCHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeec--ccccccc---cceEEEEEeeccccccccccchh
Confidence            3444456999999999999999999998653211  122222222  2222222   234566666211           


Q ss_pred             --hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH----Hc
Q 040481           78 --FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE----AE  151 (222)
Q Consensus        78 --~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~----~~  151 (222)
                        +.......+..+|++++++|+.++.. ....++++.+..   .++|+++|+||+|+....... +....+..    ..
T Consensus        93 ~~~~~~~~~~~~~~~~vi~viD~~~~~~-~~~~~~~~~l~~---~~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~  167 (195)
T d1svia_          93 GRMIETYITTREELKAVVQIVDLRHAPS-NDDVQMYEFLKY---YGIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDP  167 (195)
T ss_dssp             HHHHHHHHHHCTTEEEEEEEEETTSCCC-HHHHHHHHHHHH---TTCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCT
T ss_pred             hhHHhhhhccccchhhhhhhhhcccccc-cccccccccccc---ccCcceechhhccccCHHHHH-HHHHHHHHHhcccC
Confidence              11223344567799999999987643 222445555544   347999999999986433322 22222222    24


Q ss_pred             CCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          152 GLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       152 ~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      +.+++++||++|.|+++++++|.+.+
T Consensus       168 ~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         168 EDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999887754

>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=99.81  E-value=5.2e-19  Score=132.91  Aligned_cols=162  Identities=17%  Similarity=0.155  Sum_probs=102.3

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC---CCccc--eeEEEEEEEE------------------------CCe
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS---KATIG--VEFQTQSMEI------------------------DGK   63 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~---~~~~~--~~~~~~~~~~------------------------~~~   63 (222)
                      ..+.++|+++|+.++|||||+++|++.......   .....  ..........                        ...
T Consensus         5 ~~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (205)
T d2qn6a3           5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKF   84 (205)
T ss_dssp             CCCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEE
T ss_pred             CCCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccc
Confidence            456689999999999999999999864321110   00000  0000111000                        012


Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST--  141 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~--  141 (222)
                      ...+.++|+||+..|.......+..+|++|+|+|+.++..-....+.+..+....  ..|++|+.||+|+.+......  
T Consensus        85 ~r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~--i~~iIV~vNK~Dl~~~~~~~~~~  162 (205)
T d2qn6a3          85 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQY  162 (205)
T ss_dssp             EEEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTT--CCCEEEEEECGGGSCHHHHHHHH
T ss_pred             eEEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcC--CceeeeccccCCCccchHHHHHH
Confidence            3468899999999998888888899999999999988742222233333333322  137788899999975332211  


Q ss_pred             HHHHHHHHHc---CCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          142 EEGKSLAEAE---GLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       142 ~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      .....+....   +++++++||++|.||+++++.|.+.
T Consensus       163 ~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~  200 (205)
T d2qn6a3         163 RQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEY  200 (205)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhh
Confidence            1222222222   4789999999999999998877654

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [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: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.81  E-value=5.5e-20  Score=139.90  Aligned_cols=158  Identities=16%  Similarity=0.197  Sum_probs=112.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEE
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALI   94 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~   94 (222)
                      ...||+++|+.|||||||+++|....    ..||.|.  ....+.+++  +.+++||++|+..+...|..++..++++++
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~----~~pTiG~--~~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~   76 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILH----VVLTSGI--FETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIF   76 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHH----CCCCCSC--EEEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCC----cCCCCCe--EEEEEEECc--EEEEEEecCccceeccchhhhcccccceEE
Confidence            46899999999999999999997654    3466664  344455554  667899999999999999999999999999


Q ss_pred             EEECCChhh-----------HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----C--------------------
Q 040481           95 VYDITRRTT-----------FDSISRWLDELKTHSDTTVARMLVGNKCDLESIRN----V--------------------  139 (222)
Q Consensus        95 v~d~~~~~s-----------~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~----~--------------------  139 (222)
                      |+|.++...           .+....|...+......++|++|++||+|+.+...    .                    
T Consensus        77 v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~  156 (221)
T d1azta2          77 VVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATP  156 (221)
T ss_dssp             EEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCC
T ss_pred             EEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccc
Confidence            999986432           23334455555554457799999999999842110    0                    


Q ss_pred             ------CHHHHHHHH-----HHc--------CCeEEEEccCCCCCHHHHHHHHHHHHHHH
Q 040481          140 ------STEEGKSLA-----EAE--------GLFFMETSALDSTNVKSAFEIVIREIYSN  180 (222)
Q Consensus       140 ------~~~~~~~~~-----~~~--------~~~~~~~sa~~~~~i~~~~~~i~~~~~~~  180 (222)
                            ...++..+.     ...        .+....+||.++.+|..+|..+.+.++..
T Consensus       157 ~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         157 EPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             cCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence                  012222222     111        23356899999999999998877666654

>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=99.79  E-value=1.4e-19  Score=134.80  Aligned_cols=157  Identities=15%  Similarity=0.069  Sum_probs=103.9

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCc-----C---------CCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNE-----F---------NPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA   80 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~-----~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   80 (222)
                      +.++|+++|+.++|||||+++|++..     .         ........+.++....+.+......+.++|+||+..|..
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~   81 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHH
Confidence            56899999999999999999997521     0         001112224444445555555556788999999999988


Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC---HHHHHHHHHHc-----C
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS---TEEGKSLAEAE-----G  152 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~-----~  152 (222)
                      .....+..+|++|+|+|+.++..- ...+.+..+....  ..|+||++||+|+.+.....   ..+++.+....     .
T Consensus        82 ~~~~~~~~aD~allVVda~~G~~~-QT~~~~~~a~~~~--~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~  158 (196)
T d1d2ea3          82 NMITGTAPLDGCILVVAANDGPMP-QTREHLLLARQIG--VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEE  158 (196)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCH-HHHHHHHHHHHTT--CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTT
T ss_pred             HHHHHHhhcCeEEEEEEcCCCCch-hHHHHHHHHHHhc--CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCccc
Confidence            888889999999999999987542 2233333333322  24778889999987532211   11333343333     3


Q ss_pred             CeEEEEccCCC----------CCHHHHHHHHH
Q 040481          153 LFFMETSALDS----------TNVKSAFEIVI  174 (222)
Q Consensus       153 ~~~~~~sa~~~----------~~i~~~~~~i~  174 (222)
                      ++++++||++|          .++.++++.+.
T Consensus       159 ~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~  190 (196)
T d1d2ea3         159 TPIIVGSALCALEQRDPELGLKSVQKLLDAVD  190 (196)
T ss_dssp             SCEEECCHHHHHTTCCTTTTHHHHHHHHHHHH
T ss_pred             CEEEEEEccccccccCcccccCCHHHHHHHHH
Confidence            67999999987          36666665443

>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=99.76  E-value=2.6e-18  Score=130.23  Aligned_cols=154  Identities=19%  Similarity=0.169  Sum_probs=98.6

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-------------------------------CCCccceeEEEEEEE
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPH-------------------------------SKATIGVEFQTQSME   59 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~-------------------------------~~~~~~~~~~~~~~~   59 (222)
                      +.+...+||+++|+..+|||||+.+|+.......                               .....+.+.......
T Consensus         4 ~~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~   83 (222)
T d1zunb3           4 HERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRY   83 (222)
T ss_dssp             TTSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEE
T ss_pred             cccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEE
Confidence            3456779999999999999999999964211000                               000011122222222


Q ss_pred             ECCeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCC
Q 040481           60 IDGKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRN  138 (222)
Q Consensus        60 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~  138 (222)
                      +......+.++|+||+..|-.........+|++|+|+|+.++..-+.... +..+..   .+++ ++++.||+|+.+..+
T Consensus        84 ~~~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~-~~~~~~---~gv~~iiv~vNK~D~~~~~~  159 (222)
T d1zunb3          84 FSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRH-SYIASL---LGIKHIVVAINKMDLNGFDE  159 (222)
T ss_dssp             EECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHH-HHHHHH---TTCCEEEEEEECTTTTTSCH
T ss_pred             EeccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHH-HHHHHH---cCCCEEEEEEEccccccccc
Confidence            33334567899999999998888888999999999999998754222222 222222   3344 677799999976433


Q ss_pred             CCHH----HHHHHHHHcC-----CeEEEEccCCCCCHHH
Q 040481          139 VSTE----EGKSLAEAEG-----LFFMETSALDSTNVKS  168 (222)
Q Consensus       139 ~~~~----~~~~~~~~~~-----~~~~~~sa~~~~~i~~  168 (222)
                      ...+    ++..+....+     ++++++||.+|.||.+
T Consensus       160 ~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         160 RVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             eehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            2222    2334444443     4689999999999844

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, 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: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.73  E-value=1.3e-17  Score=122.10  Aligned_cols=156  Identities=23%  Similarity=0.153  Sum_probs=96.7

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEEEECCeEEEEEEEeCCCcchhhh---------hHHH
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA---------VTSA   84 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---------~~~~   84 (222)
                      +--.|+++|.+|||||||+|+|++........ +.+...........+..  .+..+|++|......         ....
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAY--QAIYVDTPGLHMEEKRAINRLMNKAASS   81 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTE--EEEEESSSSCCHHHHHHHHHHHTCCTTS
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCc--eeEeecCCCceecchhhhhhhhhhcccc
Confidence            44569999999999999999999876543322 22222222233333333  344688877433211         1112


Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEEccCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEG-LFFMETSALDS  163 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~  163 (222)
                      ....+++++++.|..+...  ....+...+..   ...|.++|+||.|+.............+....+ .+++++||++|
T Consensus        82 ~~~~~~~~l~~~d~~~~~~--~~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g  156 (179)
T d1egaa1          82 SIGDVELVIFVVEGTRWTP--DDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETG  156 (179)
T ss_dssp             CCCCEEEEEEEEETTCCCH--HHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTT
T ss_pred             chhhcceeEEEEecCccch--hHHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCC
Confidence            2345677888888776532  22333333333   346889999999986543333334444444444 67999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 040481          164 TNVKSAFEIVIREI  177 (222)
Q Consensus       164 ~~i~~~~~~i~~~~  177 (222)
                      .|++++++.|.+++
T Consensus       157 ~gi~~L~~~i~~~l  170 (179)
T d1egaa1         157 LNVDTIAAIVRKHL  170 (179)
T ss_dssp             TTHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHhC
Confidence            99999999887754

>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=99.72  E-value=1.9e-17  Score=124.05  Aligned_cols=141  Identities=15%  Similarity=0.070  Sum_probs=91.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcC------CC-----------CCCCccceeEEEEEEEECCeEEEEEEEeCCCcch
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEF------NP-----------HSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER   77 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~------~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   77 (222)
                      +.++|+++|+.++|||||+++|+....      ..           +....++++.....+..++  ..+.|+||||+..
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~--~~i~iiDtPGh~d   79 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGHAD   79 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCSGG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC--eEEEEEeCCCchh
Confidence            568999999999999999999964210      00           0011223333444444444  5677999999999


Q ss_pred             hhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC---HHHHHHHHHHc--
Q 040481           78 FRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVA-RMLVGNKCDLESIRNVS---TEEGKSLAEAE--  151 (222)
Q Consensus        78 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~~---~~~~~~~~~~~--  151 (222)
                      |-......+..+|++|+|+|+.++..-+....| ..+..   .++| ++|++||+|+.+..+.-   .++++.+....  
T Consensus        80 f~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~---~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~  155 (204)
T d2c78a3          80 YIKNMITGAAQMDGAILVVSAADGPMPQTREHI-LLARQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEF  155 (204)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH-HHHHH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH-HHHHH---cCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCC
Confidence            988888889999999999999998764443433 33333   3355 56779999986532211   12233333333  


Q ss_pred             ---CCeEEEEccC
Q 040481          152 ---GLFFMETSAL  161 (222)
Q Consensus       152 ---~~~~~~~sa~  161 (222)
                         .+++++.|+.
T Consensus       156 ~~~~i~~i~~sa~  168 (204)
T d2c78a3         156 PGDEVPVIRGSAL  168 (204)
T ss_dssp             CTTTSCEEECCHH
T ss_pred             Ccccceeeeeech
Confidence               2557888875

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {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: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.70  E-value=3.7e-17  Score=120.20  Aligned_cols=161  Identities=12%  Similarity=0.052  Sum_probs=84.4

Q ss_pred             CCceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcch-------hh---h
Q 040481           11 GGEEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQER-------FR---A   80 (222)
Q Consensus        11 ~~~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~---~   80 (222)
                      -|.+..++|+++|.++||||||+|+|++...........+................+..++.++...       ..   .
T Consensus        11 ~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (188)
T d1puia_          11 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALG   90 (188)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhhh
Confidence            4567789999999999999999999988765333222212111222222222122222222222111       11   1


Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--HHHHHHHHHc--CCeEE
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST--EEGKSLAEAE--GLFFM  156 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~--~~~~~~~~~~--~~~~~  156 (222)
                      ........++.++.+.+......... ..++..+..   ...++++++||.|+.+......  +...+.....  ..+++
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~i  166 (188)
T d1puia_          91 EYLEKRQSLQGLVVLMDIRHPLKDLD-QQMIEWAVD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVE  166 (188)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEE
T ss_pred             hhhhhhhheeEEEEeecccccchhHH-HHHHHHhhh---ccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcEE
Confidence            11222334456666777766544222 333444433   3468899999999865322211  1222222222  35689


Q ss_pred             EEccCCCCCHHHHHHHHHH
Q 040481          157 ETSALDSTNVKSAFEIVIR  175 (222)
Q Consensus       157 ~~sa~~~~~i~~~~~~i~~  175 (222)
                      ++||++|.|++++++.|.+
T Consensus       167 ~vSA~~g~Gid~L~~~i~~  185 (188)
T d1puia_         167 TFSSLKKQGVDKLRQKLDT  185 (188)
T ss_dssp             ECBTTTTBSHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHH
Confidence            9999999999999987755

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {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: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.69  E-value=6.3e-17  Score=121.27  Aligned_cols=115  Identities=20%  Similarity=0.302  Sum_probs=81.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchhhhhHHHh----hcCCC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRAVTSAY----YRGAV   90 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~d   90 (222)
                      +.++|+|+|+++||||||+|+|++..+.+    +++.......+  +.....+.+||+||+..+...+..+    ...++
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~----~tt~~~~~~~~--~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~   75 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAA--DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVK   75 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCC----BCCCSSCEEET--TGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC----eEEecceEEEE--EeCCeEEEEEecccccchhhHHHHHHHHHhhhcc
Confidence            45699999999999999999999877542    33333333333  3334557799999998765554443    45568


Q ss_pred             EEEEEEECC-ChhhHHHHHHHH----HHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           91 GALIVYDIT-RRTTFDSISRWL----DELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        91 ~vi~v~d~~-~~~s~~~~~~~~----~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .+++++|+. +..+++....|+    ..+......++|+++|+||+|+..
T Consensus        76 ~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~  125 (209)
T d1nrjb_          76 GLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFT  125 (209)
T ss_dssp             EEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTT
T ss_pred             ccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccc
Confidence            888888876 455666665554    344455667899999999999875

>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=99.64  E-value=1e-15  Score=118.80  Aligned_cols=112  Identities=20%  Similarity=0.220  Sum_probs=79.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC------------------CCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN------------------PHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      -+|+++|+.++|||||+.+|+.....                  .+.....++......+.+.+  ..++++||||+..|
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~~dF   84 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGHVDF   84 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSSSSC
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCchhhh
Confidence            47999999999999999999642111                  01111122333333444444  56789999999999


Q ss_pred             hhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           79 RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        79 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      .......++.+|++|+|+|+.++-.-.....| +...   ..++|.++++||+|..
T Consensus        85 ~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~---~~~lP~i~fINKmDr~  136 (276)
T d2bv3a2          85 TIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAE---KYKVPRIAFANKMDKT  136 (276)
T ss_dssp             STTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHH---TTTCCEEEEEECTTST
T ss_pred             HHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHH---HcCCCEEEEEeccccc
Confidence            99989999999999999999998653333334 3333   3568999999999963

>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=99.64  E-value=3.3e-16  Score=119.73  Aligned_cols=151  Identities=16%  Similarity=0.117  Sum_probs=97.5

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcC--C-----------------------------CCCCCccceeEEEEEEEEC
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEF--N-----------------------------PHSKATIGVEFQTQSMEID   61 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~   61 (222)
                      ....++|+++|+.++|||||+.+|+....  .                             .+.....+.+.....+.. 
T Consensus         3 ~k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~-   81 (239)
T d1f60a3           3 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFET-   81 (239)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEEC-
T ss_pred             CCCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEecc-
Confidence            34568999999999999999999963111  0                             001122233333333333 


Q ss_pred             CeEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhH------HHHHHHHHHHHhcCCCCCc-EEEEEeCCCCC
Q 040481           62 GKEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTF------DSISRWLDELKTHSDTTVA-RMLVGNKCDLE  134 (222)
Q Consensus        62 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~------~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~  134 (222)
                       ..+++.|+|+||+..|-.........+|++|+|+|+.++..-      ....+.+..+..   .++| +|+++||+|+.
T Consensus        82 -~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~---~gv~~iiv~iNKmD~~  157 (239)
T d1f60a3          82 -PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSV  157 (239)
T ss_dssp             -SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGG
T ss_pred             -CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHH---cCCCeEEEEEECCCCC
Confidence             346788999999999998888899999999999999876310      011222222222   3355 67789999987


Q ss_pred             cCCCCCH----HHHHHHHHHcC-----CeEEEEccCCCCCHHH
Q 040481          135 SIRNVST----EEGKSLAEAEG-----LFFMETSALDSTNVKS  168 (222)
Q Consensus       135 ~~~~~~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  168 (222)
                      +......    .+...+....+     ++++++|+..|.|+.+
T Consensus       158 ~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         158 KWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            5333222    22333444433     5689999999988755

>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=99.63  E-value=1.8e-15  Score=117.05  Aligned_cols=111  Identities=16%  Similarity=0.206  Sum_probs=80.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCC------------------CCCccceeEEEEEEEECCeEEEEEEEeCCCcchhh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPH------------------SKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERFR   79 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   79 (222)
                      +|+++|+.++|||||+.+|+.......                  .....++......+.+.+  ..++++||||+..|.
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~--~~~n~iDtPGh~dF~   81 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGYGDFV   81 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCSGGGH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc--cceeEEccCchhhhh
Confidence            699999999999999999964221110                  011123334444455555  457899999999999


Q ss_pred             hhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           80 AVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        80 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      ......++.+|++|+|+|+.++-.-.....|. .+..   .++|.++++||+|..
T Consensus        82 ~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~-~~~~---~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          82 GEIRGALEAADAALVAVSAEAGVQVGTERAWT-VAER---LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHH-HHHH---TTCCEEEEEECGGGC
T ss_pred             hhhhhhhcccCceEEEeeccCCccchhHHHHH-hhhh---ccccccccccccccc
Confidence            98889999999999999999887644444443 3333   457999999999963

>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=99.63  E-value=7.2e-16  Score=118.37  Aligned_cols=155  Identities=18%  Similarity=0.136  Sum_probs=83.0

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCC-----------------------------CCCCccceeEEEEEEEECCeE
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNP-----------------------------HSKATIGVEFQTQSMEIDGKE   64 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~   64 (222)
                      ...++|+++|+.++|||||+.+|+......                             ......+.........+....
T Consensus        22 k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~  101 (245)
T d1r5ba3          22 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  101 (245)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccccc
Confidence            356899999999999999999995311100                             000011112222222222334


Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh---HH---HHHHHHHHHHhcCCCCC-cEEEEEeCCCCCcCC
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT---FD---SISRWLDELKTHSDTTV-ARMLVGNKCDLESIR  137 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~-p~iiv~nK~Dl~~~~  137 (222)
                      ..+.++|+||+..|..........+|++++|+|+.++..   +.   ...+.+..+..   .++ ++++++||+|++...
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~---~~i~~iiv~iNKmD~~~~~  178 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART---QGINHLVVVINKMDEPSVQ  178 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH---TTCSSEEEEEECTTSTTCS
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHH---cCCCeEEEEEEcCCCCccc
Confidence            567899999999999888888999999999999988621   00   11222222222   223 467889999986422


Q ss_pred             C--CCHHH----HHHHHHHc-------CCeEEEEccCCCCCHHHHHH
Q 040481          138 N--VSTEE----GKSLAEAE-------GLFFMETSALDSTNVKSAFE  171 (222)
Q Consensus       138 ~--~~~~~----~~~~~~~~-------~~~~~~~sa~~~~~i~~~~~  171 (222)
                      .  ...++    ...+....       .++++++||++|+||.+++.
T Consensus       179 ~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         179 WSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             hhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            1  11111    12222221       35799999999999987643

>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=99.62  E-value=9.6e-16  Score=116.29  Aligned_cols=150  Identities=18%  Similarity=0.148  Sum_probs=93.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC-------------------------------CCCCCccceeEEEEEEEECCe
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN-------------------------------PHSKATIGVEFQTQSMEIDGK   63 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~   63 (222)
                      +.++|+++|+.++|||||+.+|+.....                               .+..  .+.........+...
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~--rg~ti~~~~~~~~~~   79 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERE--RGVTINLTFMRFETK   79 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-------------CEEECS
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhc--CCccccceEEEEecC
Confidence            4789999999999999999999642110                               0111  122333333334444


Q ss_pred             EEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhh------HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           64 EVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTT------FDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        64 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s------~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      .+.+.++||||+..|.......++.+|++|+|+|+.++..      .....+-+..+...  ...++|+++||+|+....
T Consensus        80 ~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~--~~~~iIv~iNK~D~~~~~  157 (224)
T d1jnya3          80 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM--GLDQLIVAVNKMDLTEPP  157 (224)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT--TCTTCEEEEECGGGSSST
T ss_pred             CceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh--CCCceEEEEEcccCCCcc
Confidence            5678899999999999999999999999999999998631      11112222222222  123578889999986422


Q ss_pred             C--CCHH----HHHHHHHHc-----CCeEEEEccCCCCCHHH
Q 040481          138 N--VSTE----EGKSLAEAE-----GLFFMETSALDSTNVKS  168 (222)
Q Consensus       138 ~--~~~~----~~~~~~~~~-----~~~~~~~sa~~~~~i~~  168 (222)
                      .  ...+    .+..+....     .++++++||..|.||.+
T Consensus       158 ~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         158 YDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             ccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            1  1111    223333332     35689999999998854

>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=99.47  E-value=1.2e-13  Score=113.09  Aligned_cols=159  Identities=11%  Similarity=0.112  Sum_probs=89.5

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCC---ccceeEEEEEEEECCeEEEEEEEeCCCcchhhh-----hHHHhh
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKA---TIGVEFQTQSMEIDGKEVKAQIWDTAGQERFRA-----VTSAYY   86 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~   86 (222)
                      ..++|+|+|.+|||||||+|+|++.........   ..+++.....+...+ .-.+.+|||||......     .....+
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~-~~~~~l~DtPG~~~~~~~~~~~~~~~~~  133 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKF  133 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccC-CCeEEEEeCCCcccccccHHHHHHHhhh
Confidence            358999999999999999999998654222111   111111111122211 11356999999654322     122235


Q ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-------CCCCCHHH----HHHH----HHHc
Q 040481           87 RGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLES-------IRNVSTEE----GKSL----AEAE  151 (222)
Q Consensus        87 ~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~-------~~~~~~~~----~~~~----~~~~  151 (222)
                      ..+|.+|++.|..-.+.   -.+++..+..   .+.|+++|.||+|...       ......+.    .++.    ....
T Consensus       134 ~~~d~~l~~~~~~~~~~---d~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~  207 (400)
T d1tq4a_         134 YEYDFFIIISATRFKKN---DIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFREN  207 (400)
T ss_dssp             GGCSEEEEEESSCCCHH---HHHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHT
T ss_pred             hcceEEEEecCCCCCHH---HHHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHc
Confidence            66788888877543322   1233444444   4579999999999631       11122222    1111    1222


Q ss_pred             C---CeEEEEccCC--CCCHHHHHHHHHHHHHHH
Q 040481          152 G---LFFMETSALD--STNVKSAFEIVIREIYSN  180 (222)
Q Consensus       152 ~---~~~~~~sa~~--~~~i~~~~~~i~~~~~~~  180 (222)
                      +   .+++.+|..+  ..++.++.+.+.+.+-+.
T Consensus       208 ~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~  241 (400)
T d1tq4a_         208 GIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIY  241 (400)
T ss_dssp             TCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             CCCCCCEEEecCCcccccCHHHHHHHHHHHhHHH
Confidence            2   3478888765  358888888877765544

>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=99.47  E-value=6.2e-13  Score=102.54  Aligned_cols=125  Identities=13%  Similarity=0.068  Sum_probs=76.8

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCC-CCccceeEEEEEEEECCeEEEEEEEeCCCcchh-------hhhHHH-
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEFNPHS-KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF-------RAVTSA-   84 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~-   84 (222)
                      ...++|+++|.+|+|||||+|+|++....... .+..+.+........++  ..+.++||||....       ...... 
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHH
Confidence            35689999999999999999999998754433 23334444555555665  45779999994321       111111 


Q ss_pred             -hhcCCCEEEEEEECCChh-hH--HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH
Q 040481           85 -YYRGAVGALIVYDITRRT-TF--DSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVST  141 (222)
Q Consensus        85 -~~~~~d~vi~v~d~~~~~-s~--~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~  141 (222)
                       .....++++||++++... +-  .....++..+... ....+++||+||.|.........
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~-~~~~~~ivv~t~~D~~~~~~~~~  167 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGK-GIWNKAIVALTHAQFSPPDGLPY  167 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCG-GGGGGEEEEEECCSCCCGGGCCH
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcch-hhhhCEEEEEECcccCCcCCCcH
Confidence             224468899999987542 21  1122233333211 12247899999999876444443

>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=99.46  E-value=1.7e-13  Score=109.20  Aligned_cols=113  Identities=21%  Similarity=0.260  Sum_probs=79.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcC----------------CCCCCCccceeEEEEEEEE--------------CCeEEEE
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEF----------------NPHSKATIGVEFQTQSMEI--------------DGKEVKA   67 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~--------------~~~~~~~   67 (222)
                      +|+|+|+.++|||||+.+|+....                ..+.....++........+              ++..+.+
T Consensus        19 NI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i   98 (341)
T d1n0ua2          19 NMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLI   98 (341)
T ss_dssp             EEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEE
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccceEE
Confidence            599999999999999999963211                0011111122222222221              3356789


Q ss_pred             EEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           68 QIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        68 ~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      +++||||+..|.......++.+|++|+|+|+.++-.......|.....    .++|+++++||+|..
T Consensus        99 nliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~----~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          99 NLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  161 (341)
T ss_dssp             EEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             EEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH----cCCCeEEEEECcccc
Confidence            999999999999988899999999999999999876555445544332    457999999999963

>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=99.31  E-value=7.9e-13  Score=100.64  Aligned_cols=109  Identities=11%  Similarity=-0.032  Sum_probs=63.8

Q ss_pred             EEEEEeCCCcchhhhhHHH---h--hcCCCEEEEEEECCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           66 KAQIWDTAGQERFRAVTSA---Y--YRGAVGALIVYDITR---RTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~~~~---~--~~~~d~vi~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      .+.++|+||+..+......   +  ....+++++++|+..   ++.+.........+.  .....|.++++||+|+....
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~--~~~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLID--LRLGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHH--HHHTSCEEEEECCGGGCCHH
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHH--HHhCCCceeeeeccccccHH
Confidence            4679999998765332111   1  234568999999854   333222221111111  11346889999999986432


Q ss_pred             CCCHH-----------------------HHHH---HHH--HcCCeEEEEccCCCCCHHHHHHHHHHH
Q 040481          138 NVSTE-----------------------EGKS---LAE--AEGLFFMETSALDSTNVKSAFEIVIRE  176 (222)
Q Consensus       138 ~~~~~-----------------------~~~~---~~~--~~~~~~~~~sa~~~~~i~~~~~~i~~~  176 (222)
                      .....                       ....   ...  ...++++++||++|+|+++++..|.++
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         174 EKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            11100                       0000   011  135789999999999999999876664

>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=99.28  E-value=6.5e-12  Score=99.55  Aligned_cols=154  Identities=16%  Similarity=0.098  Sum_probs=90.9

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcC-----------CCCCCCc---------------cceeEEEEEEEECC-----
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEF-----------NPHSKAT---------------IGVEFQTQSMEIDG-----   62 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~-----------~~~~~~~---------------~~~~~~~~~~~~~~-----   62 (222)
                      ...++|.|.|+||+|||||+.+|.....           ++....+               .....+.......+     
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg~llgdr~rm~~~~~~~~~~ir~~~~~~~~gg~  128 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGGV  128 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHHhccccchhhHHHHhcccceeeccccccccccch
Confidence            3568999999999999999999964210           0010000               01112221111111     


Q ss_pred             -------------eEEEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEe
Q 040481           63 -------------KEVKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGN  129 (222)
Q Consensus        63 -------------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~n  129 (222)
                                   .++.+.|++|.|.......   ....+|.+++|..+..++.......-+-+        ++=++|+|
T Consensus       129 ~~~~~~~i~~~~~~g~d~iiiETVG~gq~e~~---~~~~~D~~v~v~~p~~GD~iQ~~k~gilE--------~aDi~vvN  197 (323)
T d2qm8a1         129 AAKTRETMLLCEAAGFDVILVETVGVGQSETA---VADLTDFFLVLMLPGAGDELQGIKKGIFE--------LADMIAVN  197 (323)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSSSSCHHH---HHTTSSEEEEEECSCC------CCTTHHH--------HCSEEEEE
T ss_pred             hHHHHHHHHhhccCCCCeEEEeehhhhhhhhh---hhcccceEEEEeeccchhhhhhhhhhHhh--------hhheeeEe
Confidence                         1245678888887654433   34558999999999988654333222222        23389999


Q ss_pred             CCCCCcCCCCCHHHHHHHHHH----------cCCeEEEEccCCCCCHHHHHHHHHHHHH
Q 040481          130 KCDLESIRNVSTEEGKSLAEA----------EGLFFMETSALDSTNVKSAFEIVIREIY  178 (222)
Q Consensus       130 K~Dl~~~~~~~~~~~~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~i~~~~~  178 (222)
                      |.|+.+...........+...          +..+++.+||.+|.|++++++.|.++..
T Consensus       198 KaD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         198 KADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  256 (323)
T ss_dssp             CCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHH
Confidence            999875433333322222222          4567999999999999999998876543

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal 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: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.26  E-value=1.6e-11  Score=95.53  Aligned_cols=83  Identities=20%  Similarity=0.150  Sum_probs=55.1

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCe---------------EEEEEEEeCCCcch---
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGK---------------EVKAQIWDTAGQER---   77 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~---   77 (222)
                      .++|.|+|.|+||||||+++|++........|.++.+-....+.+.+.               .-.+.++|+||.-.   
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~   81 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcc
Confidence            369999999999999999999988765454455454444444444321               12477999999421   


Q ss_pred             ----hhhhHHHhhcCCCEEEEEEEC
Q 040481           78 ----FRAVTSAYYRGAVGALIVYDI   98 (222)
Q Consensus        78 ----~~~~~~~~~~~~d~vi~v~d~   98 (222)
                          ........++++|++|.|+|+
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~  106 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRC  106 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEEC
T ss_pred             cCCCccHHHHHHHHhccceEEEeec
Confidence                222345668999999999987

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal 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: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.26  E-value=6e-11  Score=93.07  Aligned_cols=87  Identities=16%  Similarity=0.206  Sum_probs=60.5

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcCcC-CCCCCCccceeEEEEEEEECCe---------------EEEEEEEeCCCcch
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARNEF-NPHSKATIGVEFQTQSMEIDGK---------------EVKAQIWDTAGQER   77 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~   77 (222)
                      ...++|.|+|.|+||||||+++|++... .....|.++.+-....+.+.+.               ...+.++|+||...
T Consensus         8 ~~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~   87 (296)
T d1ni3a1           8 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   87 (296)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccc
Confidence            3458999999999999999999998754 2344454454444444444431               24678999998321


Q ss_pred             -------hhhhHHHhhcCCCEEEEEEECCC
Q 040481           78 -------FRAVTSAYYRGAVGALIVYDITR  100 (222)
Q Consensus        78 -------~~~~~~~~~~~~d~vi~v~d~~~  100 (222)
                             ........++.+|++|.|+|+.+
T Consensus        88 gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          88 GASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccccccccHHHHHHHhhccceeEEEEeccC
Confidence                   22345567899999999999855

>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=99.24  E-value=5.4e-12  Score=100.13  Aligned_cols=101  Identities=19%  Similarity=0.117  Sum_probs=59.3

Q ss_pred             EEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHH
Q 040481           66 KAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEE  143 (222)
Q Consensus        66 ~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~  143 (222)
                      .+.+++|.|......   .+...+|.+++|..+..+.........+-++        +=++|+||+|+.......  ..+
T Consensus       148 d~iliEtvG~gq~e~---~i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e~--------aDi~VvNKaD~~~~~~~~~~~~~  216 (327)
T d2p67a1         148 DVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKKGLMEV--------ADLIVINKDDGDNHTNVAIARHM  216 (327)
T ss_dssp             SEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCHHHHHH--------CSEEEECCCCTTCHHHHHHHHHH
T ss_pred             CeEEEeeccccccch---hhhhccceEEEEecCCCchhhhhhchhhhcc--------ccEEEEEeecccchHHHHHHHHH
Confidence            355667766544322   3566789999999887776544333333333        338999999986422211  111


Q ss_pred             HHHHH-------HHcCCeEEEEccCCCCCHHHHHHHHHHHH
Q 040481          144 GKSLA-------EAEGLFFMETSALDSTNVKSAFEIVIREI  177 (222)
Q Consensus       144 ~~~~~-------~~~~~~~~~~sa~~~~~i~~~~~~i~~~~  177 (222)
                      .....       ..+..+++.|||.+|.|++++++.|.++.
T Consensus       217 ~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~  257 (327)
T d2p67a1         217 YESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFK  257 (327)
T ss_dssp             HHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHH
T ss_pred             HHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHH
Confidence            11111       12346799999999999999999876644

>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=99.06  E-value=2.3e-09  Score=83.81  Aligned_cols=119  Identities=18%  Similarity=0.187  Sum_probs=73.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCC-CCCCCccceeEEEEEEEEC----------C---------------------
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFN-PHSKATIGVEFQTQSMEID----------G---------------------   62 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~----------~---------------------   62 (222)
                      ..++|+|+|..++|||||+|+|++..+. ....+++..........-.          +                     
T Consensus        25 ~~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (299)
T d2akab1          25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  104 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhh
Confidence            4568999999999999999999998863 3333333222222211100          0                     


Q ss_pred             ------------------eEEEEEEEeCCCcch-------------hhhhHHHhhcCCCE-EEEEEECCChhhHHHHHHH
Q 040481           63 ------------------KEVKAQIWDTAGQER-------------FRAVTSAYYRGAVG-ALIVYDITRRTTFDSISRW  110 (222)
Q Consensus        63 ------------------~~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~-vi~v~d~~~~~s~~~~~~~  110 (222)
                                        ....+.++|+||...             ...+...++...+. +++|.++....+-.....+
T Consensus       105 ~~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~  184 (299)
T d2akab1         105 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKI  184 (299)
T ss_dssp             SSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHH
T ss_pred             CCCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHH
Confidence                              001267999999422             12445556667764 5567777665554444455


Q ss_pred             HHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040481          111 LDELKTHSDTTVARMLVGNKCDLESI  136 (222)
Q Consensus       111 ~~~i~~~~~~~~p~iiv~nK~Dl~~~  136 (222)
                      .+.+   .+...++++|+||.|..+.
T Consensus       185 ~~~~---~~~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         185 AKEV---DPQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHH---CTTCSSEEEEEECGGGSCT
T ss_pred             HHHh---CcCCCceeeEEeccccccc
Confidence            5544   3344588999999998754

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

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 PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.00  E-value=2.1e-10  Score=90.76  Aligned_cols=84  Identities=19%  Similarity=0.147  Sum_probs=45.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEE------EE----------------CCeEEEEEEEeCCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSM------EI----------------DGKEVKAQIWDTAG   74 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~------~~----------------~~~~~~~~i~D~~G   74 (222)
                      ++|+++|.|+||||||+|+|++........|.++.+-.....      .+                ......++++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            479999999999999999999887655444544433211111      10                01335688999999


Q ss_pred             cch-------hhhhHHHhhcCCCEEEEEEECCC
Q 040481           75 QER-------FRAVTSAYYRGAVGALIVYDITR  100 (222)
Q Consensus        75 ~~~-------~~~~~~~~~~~~d~vi~v~d~~~  100 (222)
                      .-.       ........++.+|++++|+|+.+
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            422       11122234678999999999853

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {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: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.89  E-value=6.1e-09  Score=81.65  Aligned_cols=116  Identities=19%  Similarity=0.217  Sum_probs=68.4

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCcCCCCCC-CccceeEEEEEE------------------------------------
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNEFNPHSK-ATIGVEFQTQSM------------------------------------   58 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~------------------------------------   58 (222)
                      .++|+|+|..++|||||+|+|+|..+.+... +++.........                                    
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  103 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREEII  103 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccccCCEEEEEecCCcccCccchhhhhHHhhcCCceecCHHHHHHHHH
Confidence            4689999999999999999999987643322 222111111100                                    


Q ss_pred             ----------------------EECCeEEEEEEEeCCCcch-------------hhhhHHHhhcCCCEEEEEE-ECCChh
Q 040481           59 ----------------------EIDGKEVKAQIWDTAGQER-------------FRAVTSAYYRGAVGALIVY-DITRRT  102 (222)
Q Consensus        59 ----------------------~~~~~~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~vi~v~-d~~~~~  102 (222)
                                            .... ...+.++|+||...             ...++..++..++.+|+++ +.....
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~  182 (306)
T d1jwyb_         104 RDTDRMTGKNKGISAQPINLKIYSPH-VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDL  182 (306)
T ss_dssp             HHCC--------CCCCCEEEEEEETT-SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCS
T ss_pred             HHHHHhcCCCCcccccceEEEecCCC-CCCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccc
Confidence                                  0000 11367999999432             2345667888999866655 544333


Q ss_pred             hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481          103 TFDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus       103 s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .-.....+...+   .+...++++|+||.|..+
T Consensus       183 ~~~~~~~~~~~~---~~~~~r~i~Vitk~D~~~  212 (306)
T d1jwyb_         183 ANSDALQLAKEV---DPEGKRTIGVITKLDLMD  212 (306)
T ss_dssp             TTCSHHHHHHHH---CSSCSSEEEEEECTTSSC
T ss_pred             cccHHHHHHHHh---CcCCCeEEEEEecccccc
Confidence            222233444443   334468899999999864

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {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 YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.50  E-value=6.1e-08  Score=74.68  Aligned_cols=59  Identities=25%  Similarity=0.420  Sum_probs=37.1

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCc
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQ   75 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   75 (222)
                      ....++|+|+|.|+||||||+|+|.+........ ..|++.....+..+.   .+.++||||.
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~-~pG~Tr~~~~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGD-RPGITTSQQWVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEECC-cccccccceEEECCC---CeEEecCCCc
Confidence            4466899999999999999999999876543322 223333444444432   2679999995

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {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 EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.39  E-value=4.2e-07  Score=67.38  Aligned_cols=84  Identities=17%  Similarity=0.155  Sum_probs=61.2

Q ss_pred             hhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH--HcCCeEEEEccC
Q 040481           85 YYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAE--AEGLFFMETSAL  161 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~--~~~~~~~~~sa~  161 (222)
                      ...+.|.+++|+++.++. +...+.+++.....   .++|.+||+||+||.+....  +....+..  ..+.+++.+|++
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~--~~~~~~~~~~~~~~~v~~vSa~   81 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAK   81 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTT
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCCHHHH--HHHHHhhcccccceeEEEeccc
Confidence            357889999999998864 56777888777766   45788999999999753221  12222333  235778999999


Q ss_pred             CCCCHHHHHHHH
Q 040481          162 DSTNVKSAFEIV  173 (222)
Q Consensus       162 ~~~~i~~~~~~i  173 (222)
                      ++.|++++...+
T Consensus        82 ~~~g~~~L~~~l   93 (225)
T d1u0la2          82 TGMGIEELKEYL   93 (225)
T ss_dssp             TCTTHHHHHHHH
T ss_pred             cchhHhhHHHHh
Confidence            999999987654

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {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 EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.28  E-value=1.5e-07  Score=69.92  Aligned_cols=58  Identities=24%  Similarity=0.154  Sum_probs=33.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCcCCCC---C---CCccceeEEEEEEEECCeEEEEEEEeCCCcchh
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNEFNPH---S---KATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF   78 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~~~~~---~---~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   78 (222)
                      ..+++|++|||||||+|+|.+......   +   .....++.....+.+++..   .++||||...+
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~gg---~iiDTPG~r~~  160 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFGG---YVVDTPGFANL  160 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTSC---EEESSCSSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCCc---EEEeCCccccc
Confidence            568999999999999999987542211   1   1111111222223343322   49999997654

>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=98.25  E-value=9.7e-07  Score=65.01  Aligned_cols=92  Identities=14%  Similarity=0.081  Sum_probs=53.9

Q ss_pred             EEEEEEeCCCcchhhhh----HHHhh---c-----CCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040481           65 VKAQIWDTAGQERFRAV----TSAYY---R-----GAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKC  131 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~----~~~~~---~-----~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~  131 (222)
                      +.+.++||+|...++..    ...+.   .     ..+-+++|+|++... .+..+...+..+   .    +-=+|+||.
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~---~----~~~lI~TKl  166 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAV---N----VTGIILTKL  166 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHHS---C----CCEEEEECG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhcccc---C----CceEEEecc
Confidence            35679999994433222    11111   1     146789999997663 233333333222   1    336899999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHHH
Q 040481          132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKSA  169 (222)
Q Consensus       132 Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  169 (222)
                      |...  ..  -.+...+...+.|+..++  +|.+++++
T Consensus       167 De~~--~~--G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl  198 (213)
T d1vmaa2         167 DGTA--KG--GITLAIARELGIPIKFIG--VGEKAEDL  198 (213)
T ss_dssp             GGCS--CT--THHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             cCCC--cc--cHHHHHHHHHCCCEEEEe--CCCCcccC
Confidence            9653  22  235567788888877666  56667553

>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=98.23  E-value=3.4e-06  Score=59.83  Aligned_cols=23  Identities=35%  Similarity=0.716  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +||+|+|++|+|||||++.+.+.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            48999999999999999999874

>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=98.22  E-value=1.2e-06  Score=64.35  Aligned_cols=91  Identities=12%  Similarity=0.083  Sum_probs=54.3

Q ss_pred             EEEEEEeCCCcchhhhh-------HHHhhc-----CCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040481           65 VKAQIWDTAGQERFRAV-------TSAYYR-----GAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKC  131 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~-------~~~~~~-----~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~  131 (222)
                      +.+.++||+|....+..       +....+     ..+-+++|.|+...+ ....+...+..+   .    +-=+|+||.
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~---~----~~~lIlTKl  164 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV---G----LTGITLTKL  164 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS---C----CCEEEEECC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc---C----CceEEEeec
Confidence            35679999994333221       111222     246789999997663 333333333222   1    336889999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       132 Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      |....    .-.+...+...++|+..++  +|.+|++
T Consensus       165 De~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         165 DGTAK----GGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TTCTT----TTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            97532    2235567888899977766  6677755

>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=98.16  E-value=6.7e-07  Score=65.61  Aligned_cols=91  Identities=9%  Similarity=0.009  Sum_probs=53.7

Q ss_pred             EEEEEEeCCCcchhhhh----HHHh---h-----cCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040481           65 VKAQIWDTAGQERFRAV----TSAY---Y-----RGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKC  131 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~----~~~~---~-----~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~  131 (222)
                      +.+.++||+|...++..    +..+   .     ...+-+++|+|++..+ ....+...+..+.       +--+|+||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~-------~~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVG-------LTGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHHC-------CSEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhccC-------CceEEEecc
Confidence            35779999995443222    1111   1     2457789999997664 3444444444331       226899999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          132 DLESIRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       132 Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                      |....-.    .+..++...+.|+..++  +|++.++
T Consensus       162 Det~~~G----~~l~~~~~~~~Pi~~i~--~Gq~p~D  192 (207)
T d1okkd2         162 DGTAKGG----VLIPIVRTLKVPIKFVG--VGEGPDD  192 (207)
T ss_dssp             TSSCCCT----THHHHHHHHCCCEEEEE--CSSSTTC
T ss_pred             CCCCCcc----HHHHHHHHHCCCEEEEe--CCCChHh
Confidence            9753221    24456778888876666  3555444

>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=98.13  E-value=2.1e-06  Score=63.06  Aligned_cols=91  Identities=15%  Similarity=0.142  Sum_probs=54.0

Q ss_pred             EEEEEEeCCCcchhhh--h----HHHh--hcCCCEEEEEEECCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           65 VKAQIWDTAGQERFRA--V----TSAY--YRGAVGALIVYDITRRTT-FDSISRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~--~----~~~~--~~~~d~vi~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      +.+.++||+|...++.  .    ...+  .-..+-+++|+++...+. .+.+...+.   ..   + +--+|+||.|...
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~---~~---~-~~~lI~TKlDet~  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQ---AS---K-IGTIIITKMDGTA  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHH---HC---T-TEEEEEECTTSCS
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhc---cc---C-cceEEEecccCCC
Confidence            3577999999533221  1    1111  223567899999977643 332222222   21   1 2257899999753


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEEccCCCCCHHH
Q 040481          136 IRNVSTEEGKSLAEAEGLFFMETSALDSTNVKS  168 (222)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  168 (222)
                          ..-.+...+...++|+..++  +|.+|++
T Consensus       168 ----~~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         168 ----KGGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             ----CHHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ----cccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence                23456667888899977766  5666765

>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=98.13  E-value=2.7e-05  Score=57.52  Aligned_cols=93  Identities=8%  Similarity=-0.012  Sum_probs=50.4

Q ss_pred             EEEEeCCCcchhhhhHHH--------hhcCCCEEEEEEECCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           67 AQIWDTAGQERFRAVTSA--------YYRGAVGALIVYDITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        67 ~~i~D~~G~~~~~~~~~~--------~~~~~d~vi~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      ..++++.|..........        .....+++|.|+|+......-.. ..+...+....      +||+||+|+.+. 
T Consensus        92 ~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~AD------~ivlNK~Dl~~~-  164 (222)
T d1nija1          92 RLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYAD------RILLTKTDVAGE-  164 (222)
T ss_dssp             EEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHTCS------EEEEECTTTCSC-
T ss_pred             eeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHHhCC------cccccccccccH-
Confidence            357777775443332211        12235889999999876532221 22223332222      899999999752 


Q ss_pred             CCCHHHHHHHHHHcC--CeEEEEccCCCCCHHHHH
Q 040481          138 NVSTEEGKSLAEAEG--LFFMETSALDSTNVKSAF  170 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~  170 (222)
                         .+..++..+..+  +++++++ .-...+..+|
T Consensus       165 ---~~~~~~~l~~lNP~a~Ii~~~-~g~v~~~~ll  195 (222)
T d1nija1         165 ---AEKLHERLARINARAPVYTVT-HGDIDLGLLF  195 (222)
T ss_dssp             ---THHHHHHHHHHCSSSCEEECC-SSCCCGGGGS
T ss_pred             ---HHHHHHHHHHHhCCCeEEEee-CCccCHHHhh
Confidence               234455555554  5677544 3335555554

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {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 YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.11  E-value=2.9e-06  Score=64.95  Aligned_cols=94  Identities=10%  Similarity=0.097  Sum_probs=63.6

Q ss_pred             hHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEEcc
Q 040481           81 VTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVSTEEGKSLAEAEGLFFMETSA  160 (222)
Q Consensus        81 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  160 (222)
                      .....+..+|+||+|+|+.++.+...  ..+..+.    .+.|+|+|+||+|+.+.. .. +...++....+..++.+++
T Consensus         8 ~i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~----~~Kp~IlVlNK~DLv~~~-~~-~~w~~~f~~~~~~~i~isa   79 (273)
T d1puja_           8 EVTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL----KNKPRIMLLNKADKADAA-VT-QQWKEHFENQGIRSLSINS   79 (273)
T ss_dssp             HHHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC----SSSCEEEEEECGGGSCHH-HH-HHHHHHHHTTTCCEEECCT
T ss_pred             HHHHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH----cCCCeEEEEECccCCchH-HH-HHHHHHHHhcCCccceeec
Confidence            34557899999999999998865321  1222222    246999999999997532 11 1222233444678999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhh
Q 040481          161 LDSTNVKSAFEIVIREIYSNVS  182 (222)
Q Consensus       161 ~~~~~i~~~~~~i~~~~~~~~~  182 (222)
                      .++.++.++...+.+.+.+...
T Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~  101 (273)
T d1puja_          80 VNGQGLNQIVPASKEILQEKFD  101 (273)
T ss_dssp             TTCTTGGGHHHHHHHHHHHHHH
T ss_pred             ccCCCccccchhhhhhhhhhhh
Confidence            9999999888877776655443

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {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 EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.08  E-value=8.4e-07  Score=65.95  Aligned_cols=86  Identities=13%  Similarity=0.107  Sum_probs=62.8

Q ss_pred             hhcCCCEEEEEEECCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHHcCCeEEEEccC
Q 040481           85 YYRGAVGALIVYDITRRT-TFDSISRWLDELKTHSDTTVARMLVGNKCDLESIRNVS--TEEGKSLAEAEGLFFMETSAL  161 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~sa~  161 (222)
                      ...+.|.+++|+++.++. ++..+.+++.....   .+++.+||+||+||.+.....  .+...+.....+++++.+|+.
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa~   83 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSK   83 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCHH
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeecC
Confidence            357889999999998764 57777887777665   457889999999997532211  112233455678999999999


Q ss_pred             CCCCHHHHHHHH
Q 040481          162 DSTNVKSAFEIV  173 (222)
Q Consensus       162 ~~~~i~~~~~~i  173 (222)
                      ++.|++++..++
T Consensus        84 ~~~gl~~L~~~l   95 (231)
T d1t9ha2          84 DQDSLADIIPHF   95 (231)
T ss_dssp             HHTTCTTTGGGG
T ss_pred             ChhHHHHHHHhh
Confidence            999998876543

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {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 EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.06  E-value=3.9e-07  Score=67.76  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ..+++|++|||||||+|+|.+..
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            45799999999999999998763

>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=97.89  E-value=1.6e-05  Score=58.06  Aligned_cols=84  Identities=17%  Similarity=0.117  Sum_probs=49.7

Q ss_pred             EEEEEEeCCCcchhhhh----HHHh--hcCCCEEEEEEECCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040481           65 VKAQIWDTAGQERFRAV----TSAY--YRGAVGALIVYDITRRTT-FDSISRWLDELKTHSDTTVARMLVGNKCDLESIR  137 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~----~~~~--~~~~d~vi~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  137 (222)
                      +.+.++||+|....+..    +..+  ....+-+++|.|+..++. .+.+..++..+    +   +-=+|+||.|...  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~----~---~~~~I~TKlDe~~--  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV----G---VTGLVLTKLDGDA--  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT----C---CCEEEEECGGGCS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC----C---CCeeEEeecCccc--
Confidence            35679999995433221    1111  245688999999977743 32222222222    1   2258999999643  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEEc
Q 040481          138 NVSTEEGKSLAEAEGLFFMETS  159 (222)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~s  159 (222)
                        ..-.+..++...+.|+..++
T Consensus       164 --~~G~~l~~~~~~~~Pi~~i~  183 (207)
T d1ls1a2         164 --RGGAALSARHVTGKPIYFAG  183 (207)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEC
T ss_pred             --cchHHHHHHHHHCCCEEEEe
Confidence              22345667788888876664

>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=97.55  E-value=1.7e-05  Score=56.19  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .-+|+|.|++|||||||+++|...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999999763

>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=97.46  E-value=2.3e-05  Score=54.92  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .++|+|.|+|||||||+.+.|..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999954

>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=97.42  E-value=3.3e-05  Score=54.16  Aligned_cols=25  Identities=24%  Similarity=0.352  Sum_probs=21.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..++|+|.|++||||||+.+.|...
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            4579999999999999999999653

>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=97.40  E-value=3.9e-05  Score=53.55  Aligned_cols=21  Identities=24%  Similarity=0.317  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|+|++|||||||++.|..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999999975

>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=97.33  E-value=5.7e-05  Score=51.79  Aligned_cols=20  Identities=30%  Similarity=0.451  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      |++.|+||||||||+++|..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999865

>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=97.29  E-value=0.00022  Score=49.44  Aligned_cols=26  Identities=19%  Similarity=0.239  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCcCC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNEFN   42 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~~~   42 (222)
                      .-|++-|+-|+|||||++.+...-..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEecCCCccHHHHHHHHHhhccc
Confidence            46888999999999999999775443

>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=97.26  E-value=6.8e-05  Score=53.09  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998854

>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=97.25  E-value=7.8e-05  Score=53.50  Aligned_cols=26  Identities=27%  Similarity=0.514  Sum_probs=22.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+.++|+|+|+|||||||+...|...
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHHH
Confidence            35579999999999999999998753

>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=97.24  E-value=7.1e-05  Score=53.54  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .++|+++|+|||||||+.+.|..
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            46999999999999999998864

>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=97.21  E-value=8.7e-05  Score=51.68  Aligned_cols=22  Identities=36%  Similarity=0.480  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+|.|++||||||++++|...
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999753

>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=97.19  E-value=3.5e-05  Score=54.88  Aligned_cols=21  Identities=19%  Similarity=0.529  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|+||+|+||+||+++|...
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999753

>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=97.18  E-value=9.5e-05  Score=52.42  Aligned_cols=23  Identities=17%  Similarity=0.507  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ++|+|+|+|||||||+.+.|...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999998653

>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=97.16  E-value=0.0001  Score=52.36  Aligned_cols=23  Identities=26%  Similarity=0.471  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ++|+|+|+|||||||+.+.|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999988654

>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=97.13  E-value=0.00013  Score=52.16  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|+|+|+|||||||+.+.|..
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999965

>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=97.11  E-value=0.00011  Score=52.08  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .++|+|+|+|||||||+.+.|..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999865

>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=97.11  E-value=7.9e-05  Score=53.27  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++|+|+|++||||||+.+.|...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999988543

>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=97.09  E-value=0.00013  Score=54.33  Aligned_cols=23  Identities=39%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .|+|+|++|+|||||++.|.+-.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            68999999999999999998743

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), 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: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.08  E-value=0.0003  Score=53.52  Aligned_cols=60  Identities=20%  Similarity=0.187  Sum_probs=38.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCC-----CCCccceeEEEEEEEE-CCeEEEEEEEeCCCcc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPH-----SKATIGVEFQTQSMEI-DGKEVKAQIWDTAGQE   76 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~-----~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~   76 (222)
                      +..-|.|+|+.++|||+|+|.|.+....-.     ...|.|+  ......+ ++....+.++||.|..
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Gi--w~~~~~~~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGI--WMWCVPHPKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSE--EEEEEECSSSTTCEEEEEEECCBC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCce--EEEEeeccCCCCceEEEEeccccc
Confidence            455789999999999999999998764221     1223332  2222222 3445567799999953

>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=97.07  E-value=0.00013  Score=51.66  Aligned_cols=22  Identities=18%  Similarity=0.422  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ++|+++|+|||||||..+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999988854

>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=97.07  E-value=0.00014  Score=49.99  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+++|++||||||+.+.|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998653

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {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: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.07  E-value=0.00014  Score=52.70  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            47899999999999999997744

>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=97.06  E-value=9.8e-05  Score=51.60  Aligned_cols=23  Identities=35%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ++|+++|++||||||+.+.|...
T Consensus         2 p~IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999988543

>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=97.04  E-value=0.00019  Score=51.31  Aligned_cols=22  Identities=18%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      +.|+|+|+|||||||..+.|..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998854

>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=97.04  E-value=0.00016  Score=50.41  Aligned_cols=21  Identities=19%  Similarity=0.474  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      +.|+|.+|||||||+.+|...
T Consensus         4 i~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            469999999999999999653

>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=97.03  E-value=0.00016  Score=50.76  Aligned_cols=22  Identities=23%  Similarity=0.522  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|.|++|+|||||+..+...
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            3889999999999999999653

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

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 LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.03  E-value=0.00017  Score=53.78  Aligned_cols=23  Identities=35%  Similarity=0.345  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+-.
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            78999999999999999997644

>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=97.01  E-value=0.00018  Score=50.79  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..=|+++|.|||||||+++++..
T Consensus        14 p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999999864

>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=97.00  E-value=0.00018  Score=51.93  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .-|+++|.||||||||.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999975

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, 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: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.00018  Score=53.13  Aligned_cols=23  Identities=43%  Similarity=0.520  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            57899999999999999987754

>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=96.98  E-value=0.00018  Score=53.99  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.|.+-.
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            78999999999999999987643

>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=96.98  E-value=0.0027  Score=46.84  Aligned_cols=22  Identities=14%  Similarity=0.295  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.||+|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999998764

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

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: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.97  E-value=0.00019  Score=53.07  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCcchhhHhccCCC
Confidence            57899999999999999887643

>d1gkya_ c.37.1.1 (A:) Guanylate 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: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.96  E-value=0.00021  Score=50.96  Aligned_cols=21  Identities=48%  Similarity=0.627  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|+||+||||+||+++|...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999654

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {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: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.96  E-value=0.00021  Score=53.01  Aligned_cols=22  Identities=32%  Similarity=0.391  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      ++++||+|+|||||++.+.+-.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5789999999999999998754

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC 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: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.96  E-value=0.00021  Score=53.57  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+-.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            78999999999999999987643

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

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: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.91  E-value=0.00024  Score=52.71  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47999999999999999998754

>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=96.91  E-value=0.00024  Score=50.33  Aligned_cols=21  Identities=38%  Similarity=0.559  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|+||+|||||||++.|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678999999999999999654

>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=96.90  E-value=0.00025  Score=49.36  Aligned_cols=22  Identities=36%  Similarity=0.437  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      =++|+|++||||||+.+.|...
T Consensus         8 iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3567899999999999998653

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding 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: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.89  E-value=0.00024  Score=54.12  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++|+|++|+|||||++.+.+..
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            68999999999999999998744

>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=96.89  E-value=0.00031  Score=52.62  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .-|++.||||+|||||+++|.+..
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999997643

>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=96.87  E-value=0.0003  Score=50.38  Aligned_cols=23  Identities=17%  Similarity=0.411  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ...|+|+|+|||||||+...|..
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999965

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

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: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.85  E-value=0.00029  Score=52.33  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+..
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            57999999999999999998754

>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=96.84  E-value=0.0003  Score=49.04  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|.|++||||||+.+.|...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999998654

>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=96.84  E-value=0.00029  Score=49.53  Aligned_cols=20  Identities=20%  Similarity=0.273  Sum_probs=17.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      |+|.|++||||||+++.|..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68889999999999998854

>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=96.83  E-value=0.00026  Score=49.19  Aligned_cols=22  Identities=41%  Similarity=0.534  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +|+++|++||||||+.+.|...
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999998543

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

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: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.82  E-value=0.00028  Score=52.46  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|+.|+|||||++.+.+-.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998754

>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=96.82  E-value=0.00037  Score=48.63  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .-|.+.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6788999999999999988864

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {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: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.82  E-value=0.00027  Score=52.52  Aligned_cols=23  Identities=35%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            57899999999999999997743

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

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: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.82  E-value=0.00019  Score=52.92  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|++|+|||||++.+.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            47999999999999999998854

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {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: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.79  E-value=0.00034  Score=50.00  Aligned_cols=20  Identities=40%  Similarity=0.645  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      |+|+||+||||+||++.|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999854

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {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: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.79  E-value=0.00041  Score=51.49  Aligned_cols=23  Identities=22%  Similarity=0.236  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|+.|+|||||++.+.+..
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46899999999999999998764

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {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: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00025  Score=52.52  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++++|+.|+|||||++.+.+.
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999999873

>d1s96a_ c.37.1.1 (A:) Guanylate 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: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00036  Score=50.61  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|+||+||||+||++.|+..
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678999999999999999754

>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=96.76  E-value=0.00038  Score=48.45  Aligned_cols=21  Identities=29%  Similarity=0.464  Sum_probs=17.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|.|++||||||+.+.|...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            556699999999999998764

>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=96.76  E-value=0.00025  Score=53.28  Aligned_cols=22  Identities=32%  Similarity=0.449  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +|+|+|++|+|||||++.+.+-
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHhc
Confidence            7899999999999999887763

>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=96.67  E-value=0.00044  Score=51.05  Aligned_cols=24  Identities=25%  Similarity=0.463  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...+++.||||+||||+++.+.+.
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999998764

>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=96.67  E-value=0.00053  Score=48.64  Aligned_cols=24  Identities=25%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..+-|+|-|++|||||||.+.|..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346689999999999999999964

>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=96.66  E-value=0.00048  Score=48.13  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|+++|++||||||+.+.|..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            378899999999999999854

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

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: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.66  E-value=0.00044  Score=51.85  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++++|+.|+|||||++.+.+..
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            36899999999999999998754

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {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: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.64  E-value=0.00047  Score=51.78  Aligned_cols=23  Identities=43%  Similarity=0.444  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|+|++|+|||||++.+.+-.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            57999999999999999998643

>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=96.63  E-value=0.00049  Score=49.18  Aligned_cols=21  Identities=19%  Similarity=0.417  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|+|+|||||||+.+.|..
T Consensus        10 iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999865

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal 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: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.56  E-value=0.00028  Score=52.46  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .++++|++|+|||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            57999999999999999998754

>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=96.55  E-value=0.00059  Score=50.28  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.||||+||||+++.+...
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhc
Confidence            5899999999999999998753

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

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 traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.55  E-value=0.00085  Score=52.06  Aligned_cols=22  Identities=14%  Similarity=0.412  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +|+|.|+.|||||||+++|+..
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            5899999999999999999863

>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=96.50  E-value=0.00077  Score=48.23  Aligned_cols=22  Identities=32%  Similarity=0.622  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++++|++|||||+++..|...
T Consensus        45 n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHHH
Confidence            7899999999999999888653

>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=96.47  E-value=0.00039  Score=49.32  Aligned_cols=22  Identities=18%  Similarity=0.264  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..|.+.|.|||||||+.+.|..
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999954

>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=96.42  E-value=0.0012  Score=49.18  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...|++.||||+|||+|++++...
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhc
Confidence            457999999999999999999753

>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=96.39  E-value=0.00083  Score=48.78  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .+.|+|.||+||||||..+.|..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999999999855

>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=96.38  E-value=0.0008  Score=47.30  Aligned_cols=21  Identities=38%  Similarity=0.650  Sum_probs=17.5

Q ss_pred             EE-EEEcCCCCCHHHHHHHHhc
Q 040481           18 KI-VIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i-~i~G~~~~GKStli~~l~~   38 (222)
                      || +|.|.+||||||+++.|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            45 4679999999999999854

>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=96.36  E-value=0.0011  Score=47.88  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ++-|+|.|++|||||||.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999999998854

>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=96.36  E-value=0.001  Score=50.17  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++++|++|||||++++.|...
T Consensus        41 n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEECCCCCcHHHHHHHHHHH
Confidence            7899999999999999988654

>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=96.35  E-value=0.0009  Score=51.57  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.++++||||||||.|++++...
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            36899999999999999999764

>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=96.33  E-value=0.00099  Score=48.77  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.||+|+||||+++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998763

>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=96.32  E-value=0.001  Score=49.76  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -+++.|+||+|||++++.+...
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHH
Confidence            3456699999999999999764

>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=96.30  E-value=0.001  Score=49.29  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+++.||+|+||||+++++...
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999764

>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=96.16  E-value=0.0016  Score=46.30  Aligned_cols=25  Identities=24%  Similarity=0.527  Sum_probs=21.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..+-|+|-|..||||||+++.|...
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            3468899999999999999998653

>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=96.14  E-value=0.0014  Score=48.70  Aligned_cols=25  Identities=16%  Similarity=0.219  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .-.++|.|++|+|||++++.+...-
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHH
Confidence            3478999999999999999987643

>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=96.04  E-value=0.0017  Score=46.89  Aligned_cols=22  Identities=36%  Similarity=0.398  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -|+|.|||||||+|+...|...
T Consensus         5 iI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5778899999999999998653

>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=96.00  E-value=0.0018  Score=48.17  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|++.||+|+|||+|++++...
T Consensus        44 giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHH
Confidence            5899999999999999999863

>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=95.95  E-value=0.0019  Score=47.16  Aligned_cols=22  Identities=14%  Similarity=0.413  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.||+|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            3899999999999999999764

>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=95.95  E-value=0.0027  Score=44.90  Aligned_cols=25  Identities=24%  Similarity=0.170  Sum_probs=21.2

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++-|+|.|.+||||||+.+.|...
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHC
Confidence            3577899999999999999988643

>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=95.86  E-value=0.0029  Score=48.57  Aligned_cols=27  Identities=33%  Similarity=0.418  Sum_probs=22.2

Q ss_pred             CceeeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           12 GEEYLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        12 ~~~~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      .....+-|+|.|++|||||||.+.|..
T Consensus        76 ~~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          76 GQRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            344568899999999999999988854

>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=95.84  E-value=0.0023  Score=46.53  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.||+|+||||+++.+...
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHHH
Confidence            4899999999999999988653

>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=95.82  E-value=0.0022  Score=47.69  Aligned_cols=21  Identities=19%  Similarity=0.295  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|.|++|+|||||++.+..
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            477889999999999998864

>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=95.80  E-value=0.0024  Score=46.45  Aligned_cols=22  Identities=23%  Similarity=0.492  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.||+|+||||+++.+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            4899999999999999999764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.79  E-value=0.0025  Score=47.67  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.|++.||||+|||+|++++...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHHH
Confidence            36899999999999999999764

>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=95.78  E-value=0.0025  Score=47.62  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .+++.||||+|||++++++...
T Consensus        47 ~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEeeCCCCCCccHHHHHHHHH
Confidence            5899999999999999999753

>d1g41a_ 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=95.62  E-value=0.0026  Score=51.39  Aligned_cols=21  Identities=38%  Similarity=0.759  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      +|+++||+|||||-|+++|..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999999965

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.46  E-value=0.0034  Score=47.08  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -.|++.|++|+|||+|++++....
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCcchhHHHHHHHHh
Confidence            358999999999999999997644

>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=95.39  E-value=0.0044  Score=44.21  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378899999999999998864

>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=95.39  E-value=0.0042  Score=44.79  Aligned_cols=24  Identities=33%  Similarity=0.293  Sum_probs=20.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ...-|.+.|.||||||||.+.|..
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            335689999999999999999864

>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=95.09  E-value=0.0036  Score=49.64  Aligned_cols=21  Identities=33%  Similarity=0.646  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      ++++||+||||||+++..|..
T Consensus        45 n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHHH
Confidence            579999999999999966543

>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=94.99  E-value=0.0083  Score=41.95  Aligned_cols=24  Identities=33%  Similarity=0.506  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .-|++.|++|+||||+.-.|....
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            358999999999999999988754

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

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: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.90  E-value=0.0068  Score=47.52  Aligned_cols=22  Identities=18%  Similarity=0.167  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -+++.||||+|||+|.+++.+.
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999753

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

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: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=94.87  E-value=0.0038  Score=48.28  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .|++.|+||+|||+|++++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            589999999999999999854

>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=94.84  E-value=0.0081  Score=42.59  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -+.|.|++|+|||+|...+..+.
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46899999999999999887654

>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=94.82  E-value=0.011  Score=44.63  Aligned_cols=25  Identities=20%  Similarity=0.125  Sum_probs=20.7

Q ss_pred             ceeeEEEEEEcCCCCCHHHHHHHHh
Q 040481           13 EEYLFKIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        13 ~~~~~~i~i~G~~~~GKStli~~l~   37 (222)
                      ....+=|+|.|++|||||||...|.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            3345789999999999999998774

>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=94.80  E-value=0.01  Score=45.60  Aligned_cols=24  Identities=17%  Similarity=0.347  Sum_probs=20.4

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      +.-.++++||+|||||.|++.|..
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHh
Confidence            334689999999999999999865

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {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: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=94.77  E-value=0.0015  Score=46.17  Aligned_cols=18  Identities=22%  Similarity=0.536  Sum_probs=16.3

Q ss_pred             EEEcCCCCCHHHHHHHHh
Q 040481           20 VIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        20 ~i~G~~~~GKStli~~l~   37 (222)
                      +|+|+.|+|||||+.+|.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            577999999999999994

>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=94.75  E-value=0.008  Score=43.05  Aligned_cols=20  Identities=30%  Similarity=0.315  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      |+|-|..||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67789999999999998864

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

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: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.72  E-value=0.0098  Score=41.60  Aligned_cols=24  Identities=21%  Similarity=0.379  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .-|++.|++|+||||+.-.|....
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G   39 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKN   39 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            358999999999999999987654

>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=94.71  E-value=0.006  Score=44.43  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .|+|-|+.||||||+++.|...
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999988653

>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=94.58  E-value=0.015  Score=41.51  Aligned_cols=22  Identities=14%  Similarity=0.409  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~   38 (222)
                      +-|+|.|..||||||+.+.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998854

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

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: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.57  E-value=0.0075  Score=47.32  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=20.8

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      +.-+++++||+|||||-|.++|..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            345699999999999999999864

>d1e69a_ c.37.1.12 (A:) Smc head domain {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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.56  E-value=0.0063  Score=46.11  Aligned_cols=17  Identities=35%  Similarity=0.669  Sum_probs=16.1

Q ss_pred             EEEcCCCCCHHHHHHHH
Q 040481           20 VIIGDSAVGKSNLLSRY   36 (222)
Q Consensus        20 ~i~G~~~~GKStli~~l   36 (222)
                      +++|+.|+|||++++++
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            78999999999999988

>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=94.55  E-value=0.014  Score=41.74  Aligned_cols=24  Identities=21%  Similarity=0.412  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +-|+|.|..||||||+.+.|....
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G   27 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLG   27 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCC
Confidence            457899999999999999886543

>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=94.51  E-value=0.0093  Score=42.89  Aligned_cols=20  Identities=30%  Similarity=0.385  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      |+|-|+.||||||+++.|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66779999999998888744

>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=94.44  E-value=0.027  Score=40.60  Aligned_cols=23  Identities=26%  Similarity=0.260  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -+.|.|++|+|||+|...+....
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47889999999999999887544

>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=94.42  E-value=0.011  Score=44.49  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .-|.|.|.+|+|||||+..+...
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            35789999999999999988653

>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=94.34  E-value=0.013  Score=40.60  Aligned_cols=24  Identities=29%  Similarity=0.480  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcCc
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      .-|++.|++|+||||+.-.|....
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            468999999999999998887765

>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=94.19  E-value=0.012  Score=42.91  Aligned_cols=23  Identities=22%  Similarity=0.237  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|.|+||+|||+|.-.+....
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            57899999999999999887644

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

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: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.10  E-value=0.015  Score=44.69  Aligned_cols=21  Identities=19%  Similarity=0.491  Sum_probs=17.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      +++.|+||+|||.|+++|.+.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            445799999999999999764

>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=94.10  E-value=0.0067  Score=45.91  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=15.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      =|+|.|++||||||+.++|..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999998744

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

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: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.06  E-value=0.021  Score=44.02  Aligned_cols=26  Identities=23%  Similarity=0.199  Sum_probs=22.6

Q ss_pred             eeeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           14 EYLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        14 ~~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ...++|.|=|+-|+||||+++.|...
T Consensus         4 ~~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           4 VTIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             CceEEEEEECCccCCHHHHHHHHHHH
Confidence            35689999999999999999998764

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.74  E-value=0.019  Score=41.12  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -+++.|++|+||||+++.+...
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~   47 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRY   47 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHh
Confidence            4899999999999999988653

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.74  E-value=0.018  Score=42.07  Aligned_cols=21  Identities=24%  Similarity=0.425  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      .+++.|++|+|||++++.+..
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            478899999999999998754

>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=93.71  E-value=0.018  Score=41.41  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=19.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      +.+.|++|+|||-|++++....
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            7899999999999999997643

>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=93.65  E-value=0.021  Score=45.21  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCc
Q 040481           19 IVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~~   40 (222)
                      |+|.|+.||||||.++.++..-
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhhh
Confidence            8999999999999999998743

>d1w1wa_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.55  E-value=0.018  Score=45.37  Aligned_cols=18  Identities=39%  Similarity=0.648  Sum_probs=16.2

Q ss_pred             EEEcCCCCCHHHHHHHHh
Q 040481           20 VIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        20 ~i~G~~~~GKStli~~l~   37 (222)
                      +|+|+.|+|||+++.++.
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            578999999999999983

>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=93.54  E-value=0.02  Score=41.62  Aligned_cols=23  Identities=35%  Similarity=0.595  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|.|+||+|||+|+..+....
T Consensus        28 l~li~G~pGsGKT~l~~qia~~~   50 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVENA   50 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            57889999999999999987653

>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=93.54  E-value=0.019  Score=41.79  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            578889999999999999965

>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=93.42  E-value=0.023  Score=43.84  Aligned_cols=25  Identities=16%  Similarity=0.376  Sum_probs=22.3

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcC
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      ..++|.|=|+-|+||||+++.|...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999999999999764

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

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: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=93.38  E-value=0.023  Score=43.79  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=21.0

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhc
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      ..++|.|=|+-|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            346899999999999999998864

>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=93.26  E-value=0.026  Score=41.06  Aligned_cols=22  Identities=18%  Similarity=0.214  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -++|.|++|+|||+|...+...
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999988754

>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=93.26  E-value=0.023  Score=41.10  Aligned_cols=23  Identities=17%  Similarity=0.189  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -++|.|++|+|||+|...+....
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            56889999999999999986543

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

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 protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=93.21  E-value=0.018  Score=40.94  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -+++.||+++|||.|+.+|..-
T Consensus        55 ~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          55 CLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHH
Confidence            5789999999999999988653

>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=93.11  E-value=0.024  Score=40.73  Aligned_cols=20  Identities=25%  Similarity=0.290  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      |++-|..||||||+++.|..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67889999999999998854

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, 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: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.94  E-value=0.083  Score=34.83  Aligned_cols=43  Identities=9%  Similarity=0.122  Sum_probs=29.4

Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCDLE  134 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~  134 (222)
                      .+..+|+    +-+++.+.|+.+..+...+..   .+++|++.|-..|-.
T Consensus        70 ~~~~~d~----I~IDEaQFf~dl~~~~~~~~~---~~~~Viv~GLd~Df~  112 (133)
T d1xbta1          70 EALGVAV----IGIDEGQFFPDIVEFCEAMAN---AGKTVIVAALDGTFQ  112 (133)
T ss_dssp             HHHTCSE----EEESSGGGCTTHHHHHHHHHH---TTCEEEEECCSBCTT
T ss_pred             hhcccce----EEeehhHHHHHHHHHHHHHHh---cCCcEEEEEeccccc
Confidence            3556674    334577777777777766655   457888889888864

>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=92.35  E-value=0.036  Score=39.66  Aligned_cols=21  Identities=19%  Similarity=0.349  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -+.|.|++|+|||+|...+..
T Consensus        28 ~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            467889999999999877643

>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=92.35  E-value=0.044  Score=41.86  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHhcC
Q 040481           17 FKIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        17 ~~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -.++++||+|+|||.+.+.|...
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCcchHHHHHHHHHHH
Confidence            35788899999999999988653

>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=92.13  E-value=0.043  Score=40.71  Aligned_cols=20  Identities=30%  Similarity=0.484  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      ++|.|++|+|||+|+..+..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            67999999999999888764

>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=91.99  E-value=0.03  Score=41.96  Aligned_cols=15  Identities=13%  Similarity=0.534  Sum_probs=12.9

Q ss_pred             EEEEcCCCCCHHHHH
Q 040481           19 IVIIGDSAVGKSNLL   33 (222)
Q Consensus        19 i~i~G~~~~GKStli   33 (222)
                      ++|.|++|+||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            678999999999754

>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=91.87  E-value=0.047  Score=39.57  Aligned_cols=21  Identities=19%  Similarity=0.148  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|.|..||||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998854

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

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: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=91.56  E-value=0.053  Score=40.35  Aligned_cols=22  Identities=27%  Similarity=0.486  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      -+.+.|++++|||+|++.+..-
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5788899999999999998763

>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=91.47  E-value=0.051  Score=40.11  Aligned_cols=20  Identities=25%  Similarity=0.268  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040481           19 IVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~   38 (222)
                      ++|.|++|+|||+|+-.|..
T Consensus        32 ~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            56899999999999987743

>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=91.40  E-value=0.041  Score=41.58  Aligned_cols=15  Identities=27%  Similarity=0.660  Sum_probs=13.1

Q ss_pred             EEEEcCCCCCHHHHH
Q 040481           19 IVIIGDSAVGKSNLL   33 (222)
Q Consensus        19 i~i~G~~~~GKStli   33 (222)
                      ++|.|++|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            788999999999754

>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=91.00  E-value=0.058  Score=42.65  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      .++|+|.+|+|||+++..++..
T Consensus        52 H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCcHHHHHHHHHHH
Confidence            4899999999999998877543

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, 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: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=90.75  E-value=0.072  Score=40.02  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      |++|+|++|+|||+|+..+..+
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHH
Confidence            8999999999999999888654

>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=90.16  E-value=1.2  Score=29.20  Aligned_cols=44  Identities=11%  Similarity=0.120  Sum_probs=26.1

Q ss_pred             hhcCCCEEEEEEECCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           85 YYRGAVGALIVYDITRRTTFDSISR-WLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        85 ~~~~~d~vi~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      .....|++++    ++.+.|..... ....+..   .+++|++.|-..|-..
T Consensus        77 ~~~~~dvI~I----DE~QFf~d~~~~~~~~l~~---~g~~Viv~GLd~Df~~  121 (141)
T d1xx6a1          77 FEEDTEVIAI----DEVQFFDDEIVEIVNKIAE---SGRRVICAGLDMDFRG  121 (141)
T ss_dssp             CCTTCSEEEE----CSGGGSCTHHHHHHHHHHH---TTCEEEEEECSBCTTS
T ss_pred             hcccccEEEE----eehhhccccHHHHHHhhee---CCcEEEEEEecccccc
Confidence            4455675433    56666655333 3344433   4578888899998643

>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=90.04  E-value=1  Score=31.69  Aligned_cols=74  Identities=15%  Similarity=0.101  Sum_probs=48.0

Q ss_pred             EEEEEEeCCCcchhhhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCCCHHH
Q 040481           65 VKAQIWDTAGQERFRAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARM-LVGNKCDLESIRNVSTEE  143 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-iv~nK~Dl~~~~~~~~~~  143 (222)
                      +.+.++|+++.-.  ......+..+|.++++...+ ..++..+.+....+++   .++|++ +|.|+.+..+ ..+..+.
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~---~~~~~~giv~N~~~~~~-~~~~~~~  184 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKK---AGLAILGFVLNRYGRSD-RDIPPEA  184 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHH---TTCEEEEEEEEEETSCT-TCCCHHH
T ss_pred             CCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhh---hhhhhhhhhhccccccc-chhhhHH
Confidence            4677999987543  33444577899999999874 4456666666665654   345665 7899998654 3344444


Q ss_pred             HH
Q 040481          144 GK  145 (222)
Q Consensus       144 ~~  145 (222)
                      .+
T Consensus       185 ~~  186 (237)
T d1g3qa_         185 AE  186 (237)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=89.88  E-value=0.093  Score=40.74  Aligned_cols=19  Identities=26%  Similarity=0.447  Sum_probs=15.6

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 040481           18 KIVIIGDSAVGKSNLLSRY   36 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l   36 (222)
                      -++|.|++|+|||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4678899999999987543

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

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: Ureaplasma urealyticum [TaxId: 2130]

Probab=89.83  E-value=0.094  Score=34.86  Aligned_cols=35  Identities=14%  Similarity=0.180  Sum_probs=20.9

Q ss_pred             CCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040481           98 ITRRTTFDSI-SRWLDELKTHSDTTVARMLVGNKCDLES  135 (222)
Q Consensus        98 ~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  135 (222)
                      +++.+.|... ..+...+..   .+++|++.|-..|-..
T Consensus        85 IDE~QFf~d~i~~~~~~~~~---~g~~Viv~GLd~Df~~  120 (139)
T d2b8ta1          85 IDEVQFFDDRICEVANILAE---NGFVVIISGLDKNFKG  120 (139)
T ss_dssp             ECSGGGSCTHHHHHHHHHHH---TTCEEEEECCSBCTTS
T ss_pred             echhhhcchhHHHHHHHHHh---cCceEEEEEecccccc
Confidence            3466666543 333444433   4578888898888643

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {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: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=89.06  E-value=0.12  Score=37.91  Aligned_cols=21  Identities=29%  Similarity=0.482  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q 040481           18 KIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~   38 (222)
                      -|+|.|++|+||+.+.+.+..
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHHH
Confidence            479999999999999998865

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

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: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=88.38  E-value=0.5  Score=32.43  Aligned_cols=107  Identities=14%  Similarity=0.177  Sum_probs=53.8

Q ss_pred             CCCCCceeeEEEEEEcC-CCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCCcchh--------
Q 040481            8 GGGGGEEYLFKIVIIGD-SAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAGQERF--------   78 (222)
Q Consensus         8 ~~~~~~~~~~~i~i~G~-~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------   78 (222)
                      .........+||+|+|. .+.|=+.+. .|..+.....                 ...+.++++|.+.....        
T Consensus        16 ~~~~~~k~~~kV~I~GA~G~Ig~~l~~-~La~g~v~g~-----------------~~~i~L~L~di~~~~~~l~g~~mdl   77 (175)
T d7mdha1          16 DKTKSWKKLVNIAVSGAAGMISNHLLF-KLASGEVFGQ-----------------DQPIALKLLGSERSFQALEGVAMEL   77 (175)
T ss_dssp             -----CCCCEEEEEETTTSHHHHHHHH-HHHHTTTTCT-----------------TCCEEEEEECCGGGHHHHHHHHHHH
T ss_pred             hhhhccCCCcEEEEECCCcHHHHHHHH-HHHcCcccCC-----------------CceEEEEEecCccccchhcchhhhh
Confidence            33445556789999996 778865544 5544432211                 11233556666552211        


Q ss_pred             -------------hhhHHHhhcCCCEEEEEEECCCh--hhHHHH--------HHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           79 -------------RAVTSAYYRGAVGALIVYDITRR--TTFDSI--------SRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        79 -------------~~~~~~~~~~~d~vi~v~d~~~~--~s~~~~--------~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                                   .......+..+|++|++-.....  ++-..+        ..+...+..+.+...-+++++|-.|
T Consensus        78 ~d~a~~~~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd  154 (175)
T d7mdha1          78 EDSLYPLLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCN  154 (175)
T ss_dssp             HTTTCTTEEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             cccccccccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHH
Confidence                         11123456888888888765432  222222        2233444555544555566667666

>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=87.83  E-value=0.21  Score=32.20  Aligned_cols=23  Identities=22%  Similarity=0.195  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCCHHHHHHHHhc
Q 040481           16 LFKIVIIGDSAVGKSNLLSRYAR   38 (222)
Q Consensus        16 ~~~i~i~G~~~~GKStli~~l~~   38 (222)
                      -+.|.+-|.+++||++|.++|..
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHH
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHH
Confidence            47899999999999999999954

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-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: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.69  E-value=0.17  Score=36.74  Aligned_cols=19  Identities=32%  Similarity=0.513  Sum_probs=17.0

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 040481           19 IVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~   37 (222)
                      ++|-|+..+||||+++++.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            5788999999999999883

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {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: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=87.57  E-value=0.17  Score=36.45  Aligned_cols=19  Identities=37%  Similarity=0.611  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 040481           19 IVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~   37 (222)
                      ++|-||..+||||+++++.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            6899999999999999873

>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=87.19  E-value=0.19  Score=37.15  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCc
Q 040481           18 KIVIIGDSAVGKSNLLSRYARNE   40 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~~   40 (222)
                      -+.+.|++++|||+|.-.+...-
T Consensus        56 itei~G~~gsGKTtl~l~~~~~~   78 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAAA   78 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHHHH
Confidence            46789999999999998876543

>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=86.99  E-value=0.19  Score=36.86  Aligned_cols=88  Identities=11%  Similarity=0.034  Sum_probs=52.2

Q ss_pred             EEEEEEeCCCcchh-hhhHHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcCC-CCCcE-EEEEeCCCCCcCCCCCH
Q 040481           65 VKAQIWDTAGQERF-RAVTSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHSD-TTVAR-MLVGNKCDLESIRNVST  141 (222)
Q Consensus        65 ~~~~i~D~~G~~~~-~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~-iiv~nK~Dl~~~~~~~~  141 (222)
                      +.+.++|+|+.-.. ..........+|.++++.+. +..++..+......+..... .+.++ -+|.|+.+...    ..
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~----~~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVAN----EY  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC----CH
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCC----cc
Confidence            45779999874332 22222334557888877776 56666666665555544332 22332 36789987653    24


Q ss_pred             HHHHHHHHHcCCeEEE
Q 040481          142 EEGKSLAEAEGLFFME  157 (222)
Q Consensus       142 ~~~~~~~~~~~~~~~~  157 (222)
                      +..+++++..+.+++.
T Consensus       191 ~~~~~~~~~~~~~~~~  206 (269)
T d1cp2a_         191 ELLDAFAKELGSQLIH  206 (269)
T ss_dssp             HHHHHHHHHHTCCEEE
T ss_pred             chhhhhHhhcCCeEEE
Confidence            5566677777877554

>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=86.32  E-value=0.23  Score=36.89  Aligned_cols=22  Identities=36%  Similarity=0.570  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q 040481           18 KIVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~~~   39 (222)
                      |++|+|++|+|||+|+..+..+
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHH
Confidence            8999999999999998888654

>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=83.35  E-value=0.34  Score=35.70  Aligned_cols=37  Identities=22%  Similarity=0.272  Sum_probs=22.3

Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcE-EEEEeCC
Q 040481           91 GALIVYDITRRTTFDSISRWLDELKTHSDTTVAR-MLVGNKC  131 (222)
Q Consensus        91 ~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-iiv~nK~  131 (222)
                      .+++|... +..++....+.+..+....   +|+ -+|+|+.
T Consensus       200 ~~~lVt~p-e~~~~~~~~r~~~~l~~~g---i~~~~vVvN~v  237 (296)
T d1ihua1         200 RLVLVARL-QKSTLQEVARTHLELAAIG---LKNQYLVINGV  237 (296)
T ss_dssp             EEEEEEES-CHHHHHHHHHHHHHHHHHT---CCCEEEEEEEE
T ss_pred             eeeEecCc-chhHHHHHHHHHHHHHhcC---CCceEEEEcCC
Confidence            45555544 4556666677777666543   454 4667886

>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=82.80  E-value=6.3  Score=28.04  Aligned_cols=19  Identities=26%  Similarity=0.518  Sum_probs=16.6

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 040481           18 KIVIIGDSAVGKSNLLSRY   36 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l   36 (222)
                      +|+|.|..|+||||+.-.|
T Consensus         3 ~Iai~gKGGvGKTT~a~nL   21 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNL   21 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            6788999999999998665

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {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: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.76  E-value=0.36  Score=33.87  Aligned_cols=100  Identities=13%  Similarity=0.101  Sum_probs=53.1

Q ss_pred             eeEEEEEEcCCCCCHHHHHHHHhcCcCCCCCCCccceeEEEEEEEECCeEEEEEEEeCCC----cchhhhhHHHhhcC--
Q 040481           15 YLFKIVIIGDSAVGKSNLLSRYARNEFNPHSKATIGVEFQTQSMEIDGKEVKAQIWDTAG----QERFRAVTSAYYRG--   88 (222)
Q Consensus        15 ~~~~i~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----~~~~~~~~~~~~~~--   88 (222)
                      ....+++-|++|+||++++..+...-........   +              +..+...|    .+.-+.....+...  
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~---D--------------~~~i~~~~~~I~Id~IR~i~~~~~~~~~   76 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKAS---D--------------VLEIDPEGENIGIDDIRTIKDFLNYSPE   76 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTT---T--------------EEEECCSSSCBCHHHHHHHHHHHTSCCS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCC---C--------------EEEEeCCcCCCCHHHHHHHHHHHhhCcc
Confidence            3468999999999999999988752211111100   1              11222222    22223222222211  


Q ss_pred             -CCEEEEEEECCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040481           89 -AVGALIVYDITRRTTFDSISRWLDELKTHSDTTVARMLVGNKCD  132 (222)
Q Consensus        89 -~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~D  132 (222)
                       ..-=|+++|-.+..+-+....++..++.-. ...-++++.+..+
T Consensus        77 ~~~~KviIId~ad~l~~~aqNaLLK~LEEPp-~~t~fiLit~~~~  120 (198)
T d2gnoa2          77 LYTRKYVIVHDCERMTQQAANAFLKALEEPP-EYAVIVLNTRRWH  120 (198)
T ss_dssp             SSSSEEEEETTGGGBCHHHHHHTHHHHHSCC-TTEEEEEEESCGG
T ss_pred             cCCCEEEEEeCccccchhhhhHHHHHHhCCC-CCceeeeccCChh
Confidence             122377777777777666677778777643 2333444445544

>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=82.55  E-value=0.38  Score=35.19  Aligned_cols=18  Identities=28%  Similarity=0.658  Sum_probs=13.8

Q ss_pred             EEEEcCCCCCHHHHHHHH
Q 040481           19 IVIIGDSAVGKSNLLSRY   36 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l   36 (222)
                      |++.|..||||||+.-.|
T Consensus        23 ii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          23 IMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            355599999999975444

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {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: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=82.50  E-value=0.3  Score=33.83  Aligned_cols=21  Identities=24%  Similarity=0.378  Sum_probs=18.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040481           19 IVIIGDSAVGKSNLLSRYARN   39 (222)
Q Consensus        19 i~i~G~~~~GKStli~~l~~~   39 (222)
                      |+|+|...||||.+...+...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            689999999999999998754

>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=82.29  E-value=0.4  Score=35.41  Aligned_cols=88  Identities=14%  Similarity=0.060  Sum_probs=45.4

Q ss_pred             EEEEEEeCCCcchhhhh-HHHhhcCCCEEEEEEECCChhhHHHHHHHHHHHHhcC-CCCCcEE-EEEeCCCCCcCCCCCH
Q 040481           65 VKAQIWDTAGQERFRAV-TSAYYRGAVGALIVYDITRRTTFDSISRWLDELKTHS-DTTVARM-LVGNKCDLESIRNVST  141 (222)
Q Consensus        65 ~~~~i~D~~G~~~~~~~-~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~i-iv~nK~Dl~~~~~~~~  141 (222)
                      +.+.++|+|+....... .......++.++++... +..++..+......+.... ....++. +|.|+.+...    ..
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~----~~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR----ED  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT----HH
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchh----hH
Confidence            45678998775432222 22222456666666544 4445555545444443322 2334443 6788876432    23


Q ss_pred             HHHHHHHHHcCCeEEE
Q 040481          142 EEGKSLAEAEGLFFME  157 (222)
Q Consensus       142 ~~~~~~~~~~~~~~~~  157 (222)
                      +....+...++.+++.
T Consensus       194 ~~~~~~~~~~g~~vl~  209 (289)
T d2afhe1         194 ELIIALANKLGTQMIH  209 (289)
T ss_dssp             HHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHcCCeEEE
Confidence            3455666667766543

>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=81.41  E-value=0.36  Score=31.19  Aligned_cols=20  Identities=15%  Similarity=0.077  Sum_probs=16.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 040481           18 KIVIIGDSAVGKSNLLSRYA   37 (222)
Q Consensus        18 ~i~i~G~~~~GKStli~~l~   37 (222)
                      ..+|.++.|+|||+++-.+.
T Consensus        10 ~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            45789999999999886554